Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 202 of 203
Found at i:64809224 original size:27 final size:27
Alignment explanation
Indices: 64809194--64809443 Score: 112
Period size: 27 Copynumber: 9.3 Consensus size: 27
64809184 TATAACAACC
* *
64809194 ATTTTACCTTATGGGGGTATTTTGATA
1 ATTTTACCTTATGAGGGTATTTCGATA
* *
64809221 ATTTTACC-CATCGAGGGTATTTCAATA
1 ATTTTACCTTAT-GAGGGTATTTCGATA
*
64809248 ATTTTATCCTTCA--AGGGTATTTCGGTA
1 ATTTTA-CCTT-ATGAGGGTATTTCGATA
** *
64809275 GCTTTACCCTT-CG-GGGTTATTTCGATA
1 ATTTTA-CCTTATGAGGG-TATTTCGATA
* *
64809302 ATTTTACACTTCA-G-GGGTATTTTGGTA
1 ATTTTAC-CTT-ATGAGGGTATTTCGATA
* *
64809329 ATTTTACC-CATCGAGGGTATTT-TAGTA
1 ATTTTACCTTAT-GAGGGTATTTCGA-TA
* * *
64809356 ATTTTA-CTCATCAAGGGTATTTCGGTA
1 ATTTTACCTTAT-GAGGGTATTTCGATA
* *
64809383 ATTTTACCCTTCA-G-GGGTGTTTGGATA
1 ATTTTA-CCTT-ATGAGGGTATTTCGATA
* * *
64809410 ATTTTACCCGT-CGAGGGTATTTCGCTA
1 ATTTTA-CCTTATGAGGGTATTTCGATA
64809437 ATTTTAC
1 ATTTTAC
64809444 AACCTTTCTG
Statistics
Matches: 172, Mismatches: 30, Indels: 43
0.70 0.12 0.18
Matches are distributed among these distances:
24 1 0.01
26 11 0.06
27 150 0.87
28 6 0.03
29 2 0.01
30 2 0.01
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (27 bp):
ATTTTACCTTATGAGGGTATTTCGATA
Found at i:64809266 original size:54 final size:54
Alignment explanation
Indices: 64809208--64809443 Score: 244
Period size: 54 Copynumber: 4.4 Consensus size: 54
64809198 TACCTTATGG
* *
64809208 GGGTATTTTGATAATTTTACCCATCGAGGGTATTTCAATAATTTTATC-CTTCAA
1 GGGTATTTCGGTAATTTTACCCATCGAGGGTATTTCAATAATTTTA-CACTTCAA
** * * *
64809262 GGGTATTTCGGTAGCTTTACCCTTCG-GGGTTATTTCGATAATTTTACACTTCAG
1 GGGTATTTCGGTAATTTTACCCATCGAGGG-TATTTCAATAATTTTACACTTCAA
* * * * *
64809316 GGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTAGTAATTTTACTCATCAA
1 GGGTATTTCGGTAATTTTACCCATCGAGGGTATTTCAATAATTTTACACTTCAA
* * ** * * *
64809370 GGGTATTTCGGTAATTTTACCCTTC-AGGGGTGTTTGGATAATTTTACCCGTCGA
1 GGGTATTTCGGTAATTTTACCCATCGA-GGGTATTTCAATAATTTTACACTTCAA
*
64809424 GGGTATTTCGCTAATTTTAC
1 GGGTATTTCGGTAATTTTAC
64809444 AACCTTTCTG
Statistics
Matches: 151, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
53 5 0.03
54 143 0.95
55 3 0.02
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTTACCCATCGAGGGTATTTCAATAATTTTACACTTCAA
Found at i:64809320 original size:81 final size:81
Alignment explanation
Indices: 64809207--64809443 Score: 244
Period size: 81 Copynumber: 2.9 Consensus size: 81
64809197 TTACCTTATG
* * * * * *
64809207 GGGGTATTTTGATAATTTTACCCATC-GAGGGTATTTCAATAATTTTATCCTTCAAGGGTATTTC
1 GGGGTATTTCGATAATTTTACCCTTCAG-GGGTATTTCGATAATTTTACCCATCGAGGGTATTTC
* *
64809271 GGTAGCTTTACCCTTC-
65 GGTAACTTTACCCATCA
* * * *
64809287 GGGGTTATTTCGATAATTTTACACTTCAGGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTT
1 GGGG-TATTTCGATAATTTTACCCTTCAGGGGTATTTCGATAATTTTACCCATCGAGGGTATTTC
* * *
64809352 AGTAATTTTACTCATCA
65 GGTAACTTTACCCATCA
* * * * *
64809369 AGGGTATTTCGGTAATTTTACCCTTCAGGGGTGTTTGGATAATTTTACCCGTCGAGGGTATTTCG
1 GGGGTATTTCGATAATTTTACCCTTCAGGGGTATTTCGATAATTTTACCCATCGAGGGTATTTCG
* *
64809434 CTAATTTTAC
66 GTAACTTTAC
64809444 AACCTTTCTG
Statistics
Matches: 129, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
80 4 0.03
81 121 0.94
82 4 0.03
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (81 bp):
GGGGTATTTCGATAATTTTACCCTTCAGGGGTATTTCGATAATTTTACCCATCGAGGGTATTTCG
GTAACTTTACCCATCA
Found at i:64810891 original size:25 final size:25
Alignment explanation
Indices: 64810858--64810906 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
64810848 AATATAACCT
64810858 CCTTACCACACCTATGACGCCACCA
1 CCTTACCACACCTATGACGCCACCA
* *
64810883 CCTTACCACACCTGTGTCGCCACC
1 CCTTACCACACCTATGACGCCACC
64810907 TTGCCACTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.49, G:0.10, T:0.18
Consensus pattern (25 bp):
CCTTACCACACCTATGACGCCACCA
Found at i:64813550 original size:33 final size:33
Alignment explanation
Indices: 64813513--64813575 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
64813503 TGAGCCCTTA
**
64813513 ACAGTAATAGTA-CAGTGTGGGCCTTAGCCCAAT
1 ACAGTAATAGTAGCA-AATGGGCCTTAGCCCAAT
*
64813546 ACAGTAATGGTAGCAAATGGGCCTTAGCCC
1 ACAGTAATAGTAGCAAATGGGCCTTAGCCC
64813576 CCATCAGCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 24 0.92
34 2 0.08
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (33 bp):
ACAGTAATAGTAGCAAATGGGCCTTAGCCCAAT
Found at i:64814067 original size:27 final size:26
Alignment explanation
Indices: 64814037--64814191 Score: 139
Period size: 27 Copynumber: 5.8 Consensus size: 26
64814027 TACCTTACAG
* *
64814037 GGGTATTTTGGTAATTTTACCCATTGA
1 GGGTATTTCGATAATTTTACCC-TTGA
*
64814064 GGGTATTTCGATAATTTTACCCTTCGG
1 GGGTATTTCGATAATTTTACCCTT-GA
* * * *
64814091 GGGTATTTGGATAGTTTCACCCTTCGG
1 GGGTATTTCGATAATTTTACCCTT-GA
* *
64814118 GGGTATTTCAATAATTTTACCCTTTA
1 GGGTATTTCGATAATTTTACCCTTGA
* *
64814144 GGGATATTTCGATAATTTTACTCGTCGA
1 GGG-TATTTCGATAATTTTAC-CCTTGA
* * *
64814172 GTGTATTTTGCTAATTTTAC
1 GGGTATTTCGATAATTTTAC
64814192 AAACTTTTCG
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
26 5 0.05
27 96 0.91
28 5 0.05
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.43
Consensus pattern (26 bp):
GGGTATTTCGATAATTTTACCCTTGA
Found at i:64814094 original size:54 final size:53
Alignment explanation
Indices: 64814023--64814191 Score: 153
Period size: 54 Copynumber: 3.1 Consensus size: 53
64814013 TATAACAGTC
64814023 ATTTTA-CCTTACAGGGGTATTTTGGTAATTTTACCCATTGAGGGTATTTCGATA
1 ATTTTACCCTT-CAGGGGTATTTTGGTAATTTTACCC-TTGAGGGTATTTCGATA
* * * * *
64814077 ATTTTACCCTTCGGGGGTA-TTTGGATAGTTTCACCCTTCGGGGGTATTTCAATA
1 ATTTTACCCTTCAGGGGTATTTTGG-TAATTTTACCCTT-GAGGGTATTTCGATA
* * * * * * * * *
64814131 ATTTTACCCTTTAGGGATATTTCGATAATTTTACTCGTCGAGTGTATTTTGCTA
1 ATTTTACCCTTCAGGGGTATTTTGGTAATTTTAC-CCTTGAGGGTATTTCGATA
64814185 ATTTTAC
1 ATTTTAC
64814192 AAACTTTTCG
Statistics
Matches: 91, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
53 7 0.08
54 75 0.82
55 9 0.10
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (53 bp):
ATTTTACCCTTCAGGGGTATTTTGGTAATTTTACCCTTGAGGGTATTTCGATA
Found at i:64822721 original size:79 final size:81
Alignment explanation
Indices: 64822619--64822803 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
64822609 GCTCCTCGTT
* *
64822619 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
64822682 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
64822699 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
64822763 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
64822779 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64822804 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:64822803 original size:40 final size:40
Alignment explanation
Indices: 64822619--64822803 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
64822609 GCTCCTCGTT
* *
64822619 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
64822659 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
64822699 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
64822738 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
64822779 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64822804 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:64830699 original size:79 final size:81
Alignment explanation
Indices: 64830597--64830781 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
64830587 GCTCCTCGTT
* *
64830597 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
64830660 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
64830677 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
64830741 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
64830757 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64830782 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:64830781 original size:40 final size:40
Alignment explanation
Indices: 64830597--64830781 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
64830587 GCTCCTCGTT
* *
64830597 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
64830637 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
64830677 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
64830716 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
64830757 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64830782 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:64834885 original size:27 final size:27
Alignment explanation
Indices: 64834873--64834925 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
64834863 GCTAGACTTG
*
64834873 CTGGCAAACACTATCTCGCCAAACCTT
1 CTGGCAAACACTAACTCGCCAAACCTT
*
64834900 CTGGCAAACTCTAACTCGCCAAACCT
1 CTGGCAAACACTAACTCGCCAAACCT
64834926 ATTGGTGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.38, G:0.11, T:0.21
Consensus pattern (27 bp):
CTGGCAAACACTAACTCGCCAAACCTT
Found at i:64842213 original size:27 final size:28
Alignment explanation
Indices: 64842135--64842525 Score: 271
Period size: 27 Copynumber: 14.5 Consensus size: 28
64842125 TCGATATATG
*
64842135 GACCGAAATACCCTC-AAAGGGTAAAAT
1 GACCGAAATACCCTCGATAGGGTAAAAT
* * * * **
64842162 AACCAAAATGCCCTCGA-CGAATAAAAT
1 GACCGAAATACCCTCGATAGGGTAAAAT
*
64842189 GACCAAAATACCCTCGATA-GGTAAAAT
1 GACCGAAATACCCTCGATAGGGTAAAAT
* *
64842216 GATCGAAATATCCTCGAT-GGGTAAAAT
1 GACCGAAATACCCTCGATAGGGTAAAAT
* * *
64842243 GACCAAAATACCCCCG-TAGGGTAGAAT
1 GACCGAAATACCCTCGATAGGGTAAAAT
*
64842270 -ACTGAAATACCCTC-ATAGGGTAAAAT
1 GACCGAAATACCCTCGATAGGGTAAAAT
** * *
64842296 GACTAAAATACCCT-TATAGGGTAGAAT
1 GACCGAAATACCCTCGATAGGGTAAAAT
** *
64842323 -ATTGAAACACCCTC-ATAGGGTAAAAT
1 GACCGAAATACCCTCGATAGGGTAAAAT
* * *
64842349 AACCGTAATACCCTTG-TCA-GGTAAAAT
1 GACCGAAATACCCTCGAT-AGGGTAAAAT
* *
64842376 GACCGTAATACCCTTG-TAGGGTAAAAT
1 GACCGAAATACCCTCGATAGGGTAAAAT
* *
64842403 GACCGTAATGCCC-CTG-TAGGGTAAAAT
1 GACCGAAATACCCTC-GATAGGGTAAAAT
* *
64842430 GACCGTAATACCC-CTATAGGGTAAAAT
1 GACCGAAATACCCTCGATAGGGTAAAAT
* *
64842457 GACCGTAATGCCC-CTG-TAAGGGTAAAAT
1 GACCGAAATACCCTC-GAT-AGGGTAAAAT
* * **
64842485 GACTGTAATACCCT-TTTAGGGTAAAAT
1 GACCGAAATACCCTCGATAGGGTAAAAT
* *
64842512 GACCGTAATGCCCT
1 GACCGAAATACCCT
64842526 GGTAGGTAAA
Statistics
Matches: 300, Mismatches: 46, Indels: 36
0.79 0.12 0.09
Matches are distributed among these distances:
26 44 0.15
27 232 0.77
28 24 0.08
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (28 bp):
GACCGAAATACCCTCGATAGGGTAAAAT
Found at i:64842401 original size:54 final size:54
Alignment explanation
Indices: 64842208--64842539 Score: 300
Period size: 54 Copynumber: 6.2 Consensus size: 54
64842198 ACCCTCGATA
* * * * ** * *
64842208 GGTAAAATGATCGAAATATCCTCGAT-GGGTAAAATGACCAAAATACCCCCGTAG
1 GGTAAAATGACCGTAATACCCT-TATAGGGTAAAATGACCGTAATGCCCCTGTAG
* * * * *** * * *
64842262 GGTAGAAT-ACTGAAATACCCTCATAGGGTAAAATGACTAAAATACCCTTATAG
1 GGTAAAATGACCGTAATACCCTTATAGGGTAAAATGACCGTAATGCCCCTGTAG
* ** * * * * * *
64842315 GGTAGAAT-ATTGAAACACCCTCATAGGGTAAAATAACCGTAATACCCTTGTCA-
1 GGTAAAATGACCGTAATACCCTTATAGGGTAAAATGACCGTAATGCCCCTGT-AG
*
64842368 GGTAAAATGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCTTATAGGGTAAAATGACCGTAATGCCCCTGTAG
*
64842422 GGTAAAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAAG
1 GGTAAAATGACCGTAATACCCTTATAGGGTAAAATGACCGTAATGCCCCTGT-AG
* *
64842477 GGTAAAATGACTGTAATACCCTTTTAGGGTAAAATGACCGTAATG-CCCTGGTA-
1 GGTAAAATGACCGTAATACCCTTATAGGGTAAAATGACCGTAATGCCCCT-GTAG
64842530 GGT-AAATGAC
1 GGTAAAATGAC
64842540 TATTTTTGCC
Statistics
Matches: 241, Mismatches: 31, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
52 9 0.04
53 89 0.37
54 97 0.40
55 46 0.19
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (54 bp):
GGTAAAATGACCGTAATACCCTTATAGGGTAAAATGACCGTAATGCCCCTGTAG
Found at i:64842593 original size:27 final size:27
Alignment explanation
Indices: 64842529--64842599 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
64842519 ATGCCCTGGT
*
64842529 AGGT-AAATGACTATTTTTGCCCCTCA
1 AGGTCAAATGATTATTTTTGCCCCTCA
*
64842555 AGGTCAAATGATTATTTTTGCCCCTCG
1 AGGTCAAATGATTATTTTTGCCCCTCA
*
64842582 AGGTCAAATGATTGTTTT
1 AGGTCAAATGATTATTTT
64842600 GTTTGAGGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 4 0.10
27 37 0.90
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (27 bp):
AGGTCAAATGATTATTTTTGCCCCTCA
Found at i:64842640 original size:24 final size:25
Alignment explanation
Indices: 64842612--64842658 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
64842602 TTGAGGTTAA
*
64842612 ATGACTTATTTGTCTGTG-TTTGGT
1 ATGACTGATTTGTCTGTGATTTGGT
*
64842636 ATGACTGATTTGTTTGTGATTTG
1 ATGACTGATTTGTCTGTGATTTG
64842659 AATGATTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.15, C:0.06, G:0.26, T:0.53
Consensus pattern (25 bp):
ATGACTGATTTGTCTGTGATTTGGT
Found at i:64842663 original size:24 final size:24
Alignment explanation
Indices: 64842611--64842670 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
64842601 TTTGAGGTTA
*
64842611 AATGACTTATTTGTCTGTGTTTGG
1 AATGACTGATTTGTCTGTGTTTGG
* *
64842635 TATGACTGATTTGTTTGTGATTT-G
1 AATGACTGATTTGTCTGTG-TTTGG
*
64842659 AATGATTGATTT
1 AATGACTGATTT
64842671 TGAGCATGGC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 27 0.90
25 3 0.10
ACGTcount: A:0.20, C:0.05, G:0.23, T:0.52
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGTTTGG
Found at i:64842789 original size:27 final size:27
Alignment explanation
Indices: 64842733--64842783 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
64842723 ATGGAGGAAG
64842733 TACTG-TACTGGTGGCTCTGCCACAAT
1 TACTGTTACTGGTGGCTCTGCCACAAT
64842759 TACTGTTACTGGTGGCT-TGGCCACA
1 TACTGTTACTGGTGGCTCT-GCCACA
64842784 TATACTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.31
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTCTGCCACAAT
Found at i:64842794 original size:27 final size:27
Alignment explanation
Indices: 64842738--64842795 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
64842728 GGAAGTACTG
*
64842738 TACTGGTGGCTCTGCCACAATTACTGT
1 TACTGGTGGCTCTGCCACAATTACTAT
64842765 TACTGGTGGCT-TGGCCAC-ATATACTAT
1 TACTGGTGGCTCT-GCCACAAT-TACTAT
64842792 TACT
1 TACT
64842796 AGCAGCTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (27 bp):
TACTGGTGGCTCTGCCACAATTACTAT
Found at i:64842967 original size:32 final size:32
Alignment explanation
Indices: 64842841--64842993 Score: 130
Period size: 32 Copynumber: 4.8 Consensus size: 32
64842831 GCTGTGATGC
*
64842841 TACTGATGGCTTTGTGCCGATCATAGT-A-TCGT
1 TACTGATGGCTGTGTGCCGATCATA-TCACT-GT
* * * *
64842873 TACTGATGGCTTTATGCCGATCATATTACTAT
1 TACTGATGGCTGTGTGCCGATCATATCACTGT
** * * *
64842905 TACCAATGTCTGTGTGCCAATCATTTCACTGT
1 TACTGATGGCTGTGTGCCGATCATATCACTGT
* *
64842937 TACTGATGACTGTGTGCCGATCATATCACTGC
1 TACTGATGGCTGTGTGCCGATCATATCACTGT
* * * *
64842969 TGCTAATGGTTTTGTGCCGATCATA
1 TACTGATGGCTGTGTGCCGATCATA
64842994 CTACTGGCAA
Statistics
Matches: 97, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
31 1 0.01
32 95 0.98
33 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTGTGTGCCGATCATATCACTGT
Found at i:64843184 original size:27 final size:27
Alignment explanation
Indices: 64843124--64843184 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
64843114 CACCATAATA
*
64843124 ATACTGTATCGGGCTTAGGCCCACACT
1 ATACTGTATCGGGCTAAGGCCCACACT
* * *
64843151 GTTCTGTATTGGGCTAAGGCCCACACT
1 ATACTGTATCGGGCTAAGGCCCACACT
64843178 ATACTGT
1 ATACTGT
64843185 TACTGTTAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (27 bp):
ATACTGTATCGGGCTAAGGCCCACACT
Found at i:64848327 original size:30 final size:29
Alignment explanation
Indices: 64848287--64848373 Score: 74
Period size: 26 Copynumber: 3.0 Consensus size: 29
64848277 AATTTGATAA
*
64848287 TATATCAATGTTACATGATGAATGGAATTT
1 TATATAAATGTTACATG-TGAATGGAATTT
* * **
64848317 TATATAAATG-T-CAT-TAAATTTG-ATAA
1 TATATAAATGTTACATGTGAA-TGGAATTT
64848343 TATATAAATGTTACATGGTGAATGGAATTT
1 TATATAAATGTTACAT-GTGAATGGAATTT
64848373 T
1 T
64848374 TGTGAATATA
Statistics
Matches: 42, Mismatches: 9, Indels: 12
0.67 0.14 0.19
Matches are distributed among these distances:
26 15 0.36
27 3 0.07
28 6 0.14
29 3 0.07
30 15 0.36
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (29 bp):
TATATAAATGTTACATGTGAATGGAATTT
Found at i:64848352 original size:26 final size:26
Alignment explanation
Indices: 64848262--64848353 Score: 78
Period size: 26 Copynumber: 3.4 Consensus size: 26
64848252 GTCTATAAGC
*
64848262 ATATAAATGTCGTTAAATTTGATAAT
1 ATATAAATGTCATTAAATTTGATAAT
* * * **
64848288 ATATCAATGTTACATGATGAA-TGGAATTTT
1 ATATAAATG-T-CAT--TAAATTTG-ATAAT
64848318 ATATAAATGTCATTAAATTTGATAAT
1 ATATAAATGTCATTAAATTTGATAAT
64848344 ATATAAATGT
1 ATATAAATGT
64848354 TACATGGTGA
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
26 24 0.49
27 3 0.06
28 5 0.10
29 3 0.06
30 14 0.29
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.41
Consensus pattern (26 bp):
ATATAAATGTCATTAAATTTGATAAT
Found at i:64848353 original size:56 final size:56
Alignment explanation
Indices: 64848262--64848373 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
64848252 GTCTATAAGC
* *
64848262 ATATAAATGTCGTTAAATTTGATAATATATCAATGTTACATGATGAATGGAATTTT
1 ATATAAATGTCATTAAATTTGATAATATATAAATGTTACATGATGAATGGAATTTT
*
64848318 ATATAAATGTCATTAAATTTGATAATATATAAATGTTACATGGTGAATGGAATTTT
1 ATATAAATGTCATTAAATTTGATAATATATAAATGTTACATGATGAATGGAATTTT
64848374 TGTGAATATA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.41
Consensus pattern (56 bp):
ATATAAATGTCATTAAATTTGATAATATATAAATGTTACATGATGAATGGAATTTT
Found at i:64858273 original size:296 final size:296
Alignment explanation
Indices: 64857739--64858330 Score: 972
Period size: 296 Copynumber: 2.0 Consensus size: 296
64857729 ATTTTATTGC
*
64857739 ATCGACAATCACCTATACTTTTATACCTCGTGAGCACTTAGTATTCTGCTGAAGATTCATGTTGG
1 ATCGACAATCACCTATACTTTTATACCTCATGAGCACTTAGTATTCTGCTGAAGATTCATGTTGG
64857804 GGATCCCAGTTTATCATTATCATATTTTATTTTATTCTTCTCAAGTTATTGCATCAACAACTATC
66 GGATCCCAGTTTATCATTATCATATTTTATTTTATTCTTCTCAAGTTATTGCATCAACAACTATC
64857869 CTCACAATTTATATCGTTATTATCAAGTTATTGCATCGACATTAAAAGACAAAAGACACCCATCC
131 CTCACAATTTATATCGTTATTATCAAGTTATTGCATCGACATTAAAAGACAAAAGACACCCATCC
* *
64857934 TTATGGGATCATTATTCGACAAACTCACATCTACCTACTATACTTGCACTGATAGTGTACGCTTG
196 TTATGGGATCATTATCCGACAAACTCACATCTACCTACTATACTTGCACTGACAGTGTACGCTTG
* * * *
64857999 CACATTTTTACTGTGACGTTAAACAGCCGATCAAGT
261 CACATTATTACTGGGACGTTAAACAACCAATCAAGT
64858035 ATCGACAATCACCTATACTTTTATACCTCATGAGCACTTAGTATTCTGCTGAAGATTCATGTTGG
1 ATCGACAATCACCTATACTTTTATACCTCATGAGCACTTAGTATTCTGCTGAAGATTCATGTTGG
* * * * *
64858100 GGATTCCAGTTTCTCATTGTCATATTTTATTTTATTGTTCTCAAGTTATTGCATCGACAACTATC
66 GGATCCCAGTTTATCATTATCATATTTTATTTTATTCTTCTCAAGTTATTGCATCAACAACTATC
* * **
64858165 CTCGCAATTTATATCGTTATTATCAAGTTATTGCATCGACATTAATAGACAAAAGATTCCCAT-C
131 CTCACAATTTATATCGTTATTATCAAGTTATTGCATCGACATTAAAAGACAAAAGACACCCATCC
* * *
64858229 TCTGTGGGATC-TATATCCGACAAACTCACATCTGCCTACTATACTTGCACTGACAGTGTATGCT
196 T-TATGGGATCAT-TATCCGACAAACTCACATCTACCTACTATACTTGCACTGACAGTGTACGCT
*
64858293 TGCACATTATTGCTGGGACGTTAAACAACCAATCAAGT
259 TGCACATTATTACTGGGACGTTAAACAACCAATCAAGT
64858331 TTTTGGCATC
Statistics
Matches: 274, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
295 3 0.01
296 271 0.99
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (296 bp):
ATCGACAATCACCTATACTTTTATACCTCATGAGCACTTAGTATTCTGCTGAAGATTCATGTTGG
GGATCCCAGTTTATCATTATCATATTTTATTTTATTCTTCTCAAGTTATTGCATCAACAACTATC
CTCACAATTTATATCGTTATTATCAAGTTATTGCATCGACATTAAAAGACAAAAGACACCCATCC
TTATGGGATCATTATCCGACAAACTCACATCTACCTACTATACTTGCACTGACAGTGTACGCTTG
CACATTATTACTGGGACGTTAAACAACCAATCAAGT
Found at i:64863839 original size:50 final size:51
Alignment explanation
Indices: 64863769--64863901 Score: 151
Period size: 50 Copynumber: 2.6 Consensus size: 51
64863759 TATCATTCGA
* * * * * ** **
64863769 TACACGTAGTAGCTTTCACATAGTACTACGCACATGATCAAA-TTTTTTGG
1 TACACATAGTAGCCTGCACATAGTACTACACACATGACCAAAGCCTTCCGG
* *
64863819 TTCACATAGTAGCCTGCACATAGTACTACACACTTGACCAAAGCCTTCCGG
1 TACACATAGTAGCCTGCACATAGTACTACACACATGACCAAAGCCTTCCGG
*
64863870 TACACATAGTAGTCTGCACATAGTACTACACA
1 TACACATAGTAGCCTGCACATAGTACTACACA
64863902 TGTGACCATT
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 35 0.51
51 34 0.49
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (51 bp):
TACACATAGTAGCCTGCACATAGTACTACACACATGACCAAAGCCTTCCGG
Found at i:64863925 original size:51 final size:51
Alignment explanation
Indices: 64863821--64863953 Score: 146
Period size: 51 Copynumber: 2.6 Consensus size: 51
64863811 TTTTTTGGTT
*
64863821 CACATAGTAGCCTGCACATAGTACTACACACTTGACCAAAGCCTTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACTTGACCAAAGCCTTCCGATA
* * * *
64863872 CACATAGTAGTCTGCACATAGTACTACACA-TGTGACCATTA-TCTAT-TGATA
1 CACATAGTAGCCTGCACATAGTACTACACACT-TGACCA-AAGCCT-TCCGATA
* * *
64863923 CACGTAGTAGCCTGCACTTAGTATTACACAC
1 CACATAGTAGCCTGCACATAGTACTACACAC
64863954 GTGTTTATAG
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
50 1 0.01
51 66 0.96
52 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACTTGACCAAAGCCTTCCGATA
Found at i:64867977 original size:17 final size:17
Alignment explanation
Indices: 64867955--64867987 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
64867945 ATAAGTATAC
*
64867955 ATTATCATTGCATTTTT
1 ATTATCATTACATTTTT
64867972 ATTATCATTACATTTT
1 ATTATCATTACATTTT
64867988 GGTGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.12, G:0.03, T:0.58
Consensus pattern (17 bp):
ATTATCATTACATTTTT
Found at i:64871535 original size:30 final size:30
Alignment explanation
Indices: 64871501--64871723 Score: 181
Period size: 30 Copynumber: 7.5 Consensus size: 30
64871491 AGCTGAAACT
*
64871501 ATCCCTTTTCATAATTTGATAGTCGTCAGC
1 ATCCCTTTTCATAATTTGATGGTCGTCAGC
* *
64871531 ATCCCTTTTCATAATTTGTTGGTCGTCAAC
1 ATCCCTTTTCATAATTTGATGGTCGTCAGC
** * *
64871561 ATCCCTTTTCATTGTTCGATGGTCGTCATC
1 ATCCCTTTTCATAATTTGATGGTCGTCAGC
* * *
64871591 ATCCCTTTTCATAATTT-AT--TAGCTGAAGTT
1 ATCCCTTTTCATAATTTGATGGTCG-T-CAG-C
* * * * *
64871621 ATCCCTTTTCATAAATCGATAGCCG-AAGCC
1 ATCCCTTTTCATAATTTGATGGTCGTCAG-C
* *
64871651 ATCCC-TTTCATAGTTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCAGC
* *
64871680 ATGCCTTTTCAT--TGTTGATGGTCGTCACC
1 ATCCCTTTTCATAAT-TTGATGGTCGTCAGC
64871709 ATCCCTTTTCATAAT
1 ATCCCTTTTCATAAT
64871724 CGATAGCTGA
Statistics
Matches: 152, Mismatches: 30, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
27 2 0.01
28 2 0.01
29 48 0.32
30 96 0.63
31 3 0.02
33 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGTCAGC
Found at i:64871565 original size:60 final size:60
Alignment explanation
Indices: 64871501--64871723 Score: 204
Period size: 60 Copynumber: 3.8 Consensus size: 60
64871491 AGCTGAAACT
*
64871501 ATCCCTTTTCATAATTTGATAGTCGTCAGCATCCCTTTTCATAATTTGTTGGTCGTCAAC
1 ATCCCTTTTCATAATTCGATAGTCGTCAGCATCCCTTTTCATAATTTGTTGGTCGTCAAC
** * * * * * *
64871561 ATCCCTTTTCATTGTTCGATGGTCGTCATCATCCCTTTTCATAATTTATTAG-C-TGAAGTT
1 ATCCCTTTTCATAATTCGATAGTCGTCAGCATCCCTTTTCATAATTTGTTGGTCGTCAA--C
* * * * * *
64871621 ATCCCTTTTCATAAATCGATAGCCG-AAGCCATCCC-TTTCATAGTTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTCGATAGTCGTCAG-CATCCCTTTTCATAATTTGTTGGTCGTCAAC
* ** * *
64871680 ATGCCTTTTCATTGTT-GATGGTCGTCACCATCCCTTTTCATAAT
1 ATCCCTTTTCATAATTCGATAGTCGTCAGCATCCCTTTTCATAAT
64871724 CGATAGCTGA
Statistics
Matches: 124, Mismatches: 32, Indels: 15
0.73 0.19 0.09
Matches are distributed among these distances:
58 15 0.12
59 35 0.28
60 72 0.58
61 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (60 bp):
ATCCCTTTTCATAATTCGATAGTCGTCAGCATCCCTTTTCATAATTTGTTGGTCGTCAAC
Found at i:64871681 original size:29 final size:28
Alignment explanation
Indices: 64871649--64871721 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
64871639 ATAGCCGAAG
64871649 CCATCCCTTTCATAGTTTGATGGTCGTCA
1 CCATCCCTTTCATAG-TTGATGGTCGTCA
* *
64871678 CCATGCCTTTTCATTGTTGATGGTCGTCA
1 CCAT-CCCTTTCATAGTTGATGGTCGTCA
64871707 CCATCCCTTTTCATA
1 CCATCCC-TTTCATA
64871722 ATCGATAGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 2 0.05
29 27 0.71
30 9 0.24
ACGTcount: A:0.16, C:0.29, G:0.15, T:0.40
Consensus pattern (28 bp):
CCATCCCTTTCATAGTTGATGGTCGTCA
Found at i:64871741 original size:29 final size:29
Alignment explanation
Indices: 64871709--64871778 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
64871699 GGTCGTCACC
*
64871709 ATCCCTTTTCATAATCGATAGCTGAAGCT
1 ATCCCTTTTCATAATCGATAGCTAAAGCT
* * *
64871738 ATCCCTTTCCGTATTCGATAGCTAAAGCT
1 ATCCCTTTTCATAATCGATAGCTAAAGCT
64871767 ATCCCTTTTCAT
1 ATCCCTTTTCAT
64871779 TCGTTGATGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.37
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCTAAAGCT
Found at i:64875573 original size:298 final size:298
Alignment explanation
Indices: 64875037--64875626 Score: 952
Period size: 298 Copynumber: 2.0 Consensus size: 298
64875027 CGAATAGTAT
* * * *
64875037 TCTCTAACCAAAATTTAGCTCTCTCAGGATCATCATCGACTGTAGCTCAAAATTCTTCAGCCCCA
1 TCTCTAACCAAAATTTAGCTCTCTCAAGATCATCATCAACTGTAGCTCAAAACTCTTCAACCCCA
*
64875102 TATTTTCGAATTCTGTTGATTGGCTGCTTATTAGCTCTCACTATTTCCACACCTTGTGGACAACG
66 TATTTTCGAATTCTGTTGATTGGCTGCTTATTAGCTCGCACTATTTCCACACCTTGTGGACAACG
* * *
64875167 AGAACCGGTTGAGGAACAAGTGGGGATGGAGGTTGTTGAGCCGCTGGGTTCATTCGTACAAACTT
131 AGAACCGGTTGAGGAACAAGTAGGGATGGAGGTTGTTGAGCCGCCGGGTTCATTCGCACAAACTT
*
64875232 CGTAAACCACTCACTTATCATTTGAAAGAAAGCTTCCTTATCTTCCCCTCTTCAGCCCTCAGATA
196 CGTAAACCACTCACTTATCATTTGAAAGAAAGCTTCCTTATCTTCCCCTCTCCAGCCCTCAGATA
64875297 CGGGCCTCAAACCACTTGACACTGCTCCATGATTTAGC
261 CGGGCCTCAAACCACTTGACACTGCTCCATGATTTAGC
* *
64875335 TCTCTAACCAAAATTTAGCTTTCTCAAGATCATCATCAACTGTAGCTCAAAACTCTTCAACCCCG
1 TCTCTAACCAAAATTTAGCTCTCTCAAGATCATCATCAACTGTAGCTCAAAACTCTTCAACCCCA
*
64875400 TATTTGT-GAATTCTGTTGATTGG-TGGCTTATTAGCTCGCACTATTTCCACGCCTTGTGGACAA
66 TATTT-TCGAATTCTGTTGATTGGCT-GCTTATTAGCTCGCACTATTTCCACACCTTGTGGACAA
* * *
64875463 C-AGGAATCGGTTGAGGAACAAGTAGGGATGGAGGTTGTTGAGCCGCCGGGTTCGTTCGCACGAA
129 CGA-GAACCGGTTGAGGAACAAGTAGGGATGGAGGTTGTTGAGCCGCCGGGTTCATTCGCACAAA
* * *
64875527 CTTTGTAAACCACTCACTTATCATTTGAAAGAAAGCTTCCTTATCTTCCCCTCTCCGGCCCTCAT
193 CTTCGTAAACCACTCACTTATCATTTGAAAGAAAGCTTCCTTATCTTCCCCTCTCCAGCCCTCAG
* *
64875592 ATACGGGCGTCGAACCACTTGACACTGCTCCATGA
258 ATACGGGCCTCAAACCACTTGACACTGCTCCATGA
64875627 ATGGAGGCTT
Statistics
Matches: 269, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
297 2 0.01
298 266 0.99
299 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (298 bp):
TCTCTAACCAAAATTTAGCTCTCTCAAGATCATCATCAACTGTAGCTCAAAACTCTTCAACCCCA
TATTTTCGAATTCTGTTGATTGGCTGCTTATTAGCTCGCACTATTTCCACACCTTGTGGACAACG
AGAACCGGTTGAGGAACAAGTAGGGATGGAGGTTGTTGAGCCGCCGGGTTCATTCGCACAAACTT
CGTAAACCACTCACTTATCATTTGAAAGAAAGCTTCCTTATCTTCCCCTCTCCAGCCCTCAGATA
CGGGCCTCAAACCACTTGACACTGCTCCATGATTTAGC
Found at i:64878271 original size:18 final size:18
Alignment explanation
Indices: 64878238--64878272 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
64878228 TGACTTTTAT
64878238 AATGTTTCATACAATGAG
1 AATGTTTCATACAATGAG
64878256 AATGATTTCATA-AATGA
1 AATG-TTTCATACAATGA
64878273 AACTGACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (18 bp):
AATGTTTCATACAATGAG
Found at i:64883022 original size:20 final size:20
Alignment explanation
Indices: 64882997--64883038 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
64882987 AAAACTTAAA
64882997 CTTGTTAATAAAACTCATTT
1 CTTGTTAATAAAACTCATTT
* *
64883017 CTTGTTGATAAAACTCGTTT
1 CTTGTTAATAAAACTCATTT
64883037 CT
1 CT
64883039 GAAGTTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.45
Consensus pattern (20 bp):
CTTGTTAATAAAACTCATTT
Found at i:64883561 original size:28 final size:27
Alignment explanation
Indices: 64883505--64883563 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
64883495 TATATAGTAT
* **
64883505 CAGTACAGTGTGGGCCTTAGCCCGTTA
1 CAGTACAGTATGGGCCTTAGCCCAATA
64883532 CAGTAACAGTATGGGCCTTAGCCCAATA
1 CAGT-ACAGTATGGGCCTTAGCCCAATA
64883560 CAGT
1 CAGT
64883564 TATCAATACA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 4 0.14
28 24 0.86
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (27 bp):
CAGTACAGTATGGGCCTTAGCCCAATA
Found at i:64883732 original size:26 final size:26
Alignment explanation
Indices: 64883678--64883748 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
64883668 ACCAATATTA
* * *
64883678 CAGCAAAGATGCCAGTAATAATGACG
1 CAGCAAAGCTGCCAGTAACAATAACG
* *
64883704 CAGCAAAGCTGCCAGTAACAGTAATG
1 CAGCAAAGCTGCCAGTAACAATAACG
* *
64883730 CAGCAAAGCTACCACTAAC
1 CAGCAAAGCTGCCAGTAAC
64883749 TGTATATGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.41, C:0.25, G:0.20, T:0.14
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAATAACG
Found at i:64883957 original size:27 final size:27
Alignment explanation
Indices: 64883927--64884330 Score: 443
Period size: 27 Copynumber: 15.0 Consensus size: 27
64883917 GGGTATAACA
* *
64883927 GTCATTTTACCCTAT-GGGGGTATTTTG
1 GTCATTTTACCC-ATCGAGGGTATTTCG
* * **
64883954 GTCATTTTGCCCTTCGAGGGTATTTTA
1 GTCATTTTACCCATCGAGGGTATTTCG
* * * * * *
64883981 GTTATTTAACTCATTGGGGGTATTTTG
1 GTCATTTTACCCATCGAGGGTATTTCG
* * * *
64884008 ATTATTTTACCCATCGGGGGTATTTTG
1 GTCATTTTACCCATCGAGGGTATTTCG
* * * ** *
64884035 ATTATTTTACCTATTAAGGGTATTTTG
1 GTCATTTTACCCATCGAGGGTATTTCG
*
64884062 GTCATTTTACCCATCGAGGGTATTTTG
1 GTCATTTTACCCATCGAGGGTATTTCG
* *
64884089 GTCATTTTACCTAT-TAGGGGTATTTCG
1 GTCATTTTACCCATCGA-GGGTATTTCG
* * *
64884116 ATCATTTTACCCATCGGGGGTATTTCA
1 GTCATTTTACCCATCGAGGGTATTTCG
64884143 GTCATTTTACCCATCGAGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
*
64884170 GTCATTTTACCCATCAAGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
* *
64884197 ATCATTTTACCCATTGAGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
* * *
64884224 GTCATTTTACCCATTGATGGTACTTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
64884251 GTCATTTTACCCATCGAGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
* *
64884278 GTCATTTTACCCATCGAGAGTATTTTG
1 GTCATTTTACCCATCGAGGGTATTTCG
*
64884305 GTCATTTTACCCATCGGGGGTATTTC
1 GTCATTTTACCCATCGAGGGTATTTC
64884331 TATCATTTGC
Statistics
Matches: 323, Mismatches: 51, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
26 2 0.01
27 321 0.99
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCATCGAGGGTATTTCG
Found at i:64891324 original size:87 final size:86
Alignment explanation
Indices: 64891120--64891343 Score: 322
Period size: 87 Copynumber: 2.6 Consensus size: 86
64891110 ATCTGCAATT
* **
64891120 TTTAACCAGCTCCACTGCAACCGATGAAGGAAAGGCTTTGCCTTCGATCTGCTTCGTTGTCAATG
1 TTTAACCAGCTCCACTGCAACCGATG-AGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTCAATG
* * *
64891185 TAGGAAGGCAAGATCTGCTATC
65 CAAGAAGGCAAGATCTACTATC
*
64891207 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTCACTG
1 TTTAACCAGCTCCACTGCAACCGAT-GAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTCAATG
*
64891272 CAAGAAGGCAATATCTACTATC
65 CAAGAAGGCAAGATCTACTATC
** *
64891294 TTTAACCAGCTCCACTATAACCAATAGAGGCAAGGCTTTGTTTTCGATCT
1 TTTAACCAGCTCCACTGCAACCGAT-GAGGCAAGGCTTTGTTTTCGATCT
64891344 TCACTGATCT
Statistics
Matches: 124, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
87 123 0.99
88 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (86 bp):
TTTAACCAGCTCCACTGCAACCGATGAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTCAATGC
AAGAAGGCAAGATCTACTATC
Found at i:64902622 original size:11 final size:11
Alignment explanation
Indices: 64902599--64902689 Score: 52
Period size: 11 Copynumber: 8.5 Consensus size: 11
64902589 TTTTTTCAAG
64902599 TCAA-TCTCATC
1 TCAATTCTC-TC
64902610 TCAATTCTCTC
1 TCAATTCTCTC
64902621 TC-A--CAT-TC
1 TCAATTC-TCTC
64902629 TCAATTCTCTC
1 TCAATTCTCTC
* *
64902640 TCAAATCTCTT
1 TCAATTCTCTC
*
64902651 TTATATT-TCTC
1 TCA-ATTCTCTC
64902662 TCAATT-TGCTC
1 TCAATTCT-CTC
* *
64902673 TTAATTCTCAC
1 TCAATTCTCTC
64902684 TCAATT
1 TCAATT
64902690 TTTATTCCTC
Statistics
Matches: 62, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
8 5 0.08
9 2 0.03
10 6 0.10
11 42 0.68
12 7 0.11
ACGTcount: A:0.23, C:0.30, G:0.01, T:0.46
Consensus pattern (11 bp):
TCAATTCTCTC
Found at i:64903617 original size:9 final size:9
Alignment explanation
Indices: 64903574--64903625 Score: 68
Period size: 9 Copynumber: 5.7 Consensus size: 9
64903564 TTTACAACTC
64903574 AAAAAATAT
1 AAAAAATAT
* *
64903583 AAAAAGTCT
1 AAAAAATAT
*
64903592 AAAGAATAT
1 AAAAAATAT
64903601 ATAAAAATAT
1 A-AAAAATAT
64903611 AAAAAATAT
1 AAAAAATAT
64903620 AAAAAA
1 AAAAAA
64903626 CCCCTAAACA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
9 28 0.78
10 8 0.22
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (9 bp):
AAAAAATAT
Found at i:64903880 original size:23 final size:23
Alignment explanation
Indices: 64903813--64903885 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
64903803 TCACGAGTAA
*
64903813 TATTCAATTTAGGGTCCACATGTAT
1 TATT-AATTTAGGCT-CACATGTAT
* * * **
64903838 TAATAGTTTAGGTTTGCATGTAT
1 TATTAATTTAGGCTCACATGTAT
64903861 TATTAATTTAGGCTCACATG-AT
1 TATTAATTTAGGCTCACATGTAT
64903883 TAT
1 TAT
64903886 CCCAAAGGCT
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
22 5 0.13
23 22 0.58
24 8 0.21
25 3 0.08
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.44
Consensus pattern (23 bp):
TATTAATTTAGGCTCACATGTAT
Found at i:64905887 original size:157 final size:157
Alignment explanation
Indices: 64905726--64906009 Score: 462
Period size: 157 Copynumber: 1.8 Consensus size: 157
64905716 ATTAAGAATT
* * *
64905726 TTATT-AAATTATATATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAA
1 TTATTGAAATT-TAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAA
*
64905790 ACATAATTATTATTAAACATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTACC
65 ACATAATTATTATTAAACATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTACC
64905855 AGAAATTTGTTTTGGTAAATTATTATTG
130 AGAAATTTGTTTTGGTAAATTATTATTG
** * *
64905883 TTATTGTTATTTAAATTTTGATAAGATTATTAATATGAATAATAAATAATTTAATCATATTTAAA
1 TTATTGAAATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAA
* *
64905948 CATAATTATTATTAAATATATTATACTTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 CATAATTATTATTAAACATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
64906010 ATATTCTTAT
Statistics
Matches: 116, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
157 113 0.97
158 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (157 bp):
TTATTGAAATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAA
CATAATTATTATTAAACATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTACCA
GAAATTTGTTTTGGTAAATTATTATTG
Found at i:64906006 original size:82 final size:81
Alignment explanation
Indices: 64905763--64906012 Score: 186
Period size: 76 Copynumber: 3.1 Consensus size: 81
64905753 TATTATTATC
* * *
64905763 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTAT-ATTAAAATATAT
64905828 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
* * * * *
64905845 AATAATTACCAGA-AATTT-GT--T-TTGGT-AA-ATTATTATTGTT--AT-TGTTAT-TTAAAT
1 AATAA-TA--A-ATAATTTAATCATATT--TAAACATAATTATTATTAAATATATTATATTAAAA
* * * * *
64905899 TTTGATAAGATT-AT-TAA-TATG
60 TAT-ATAA-TTTAATAAAATTCTT
64905920 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATA-TTAAAATATAT
64905985 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
*
64906002 AATAATTAATA
1 AATAATAAATA
64906013 TTCTTATATG
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 3 0.02
75 10 0.08
76 21 0.17
77 6 0.05
78 8 0.07
79 8 0.07
80 6 0.05
81 21 0.17
82 20 0.17
83 3 0.02
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (81 bp):
AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATATTAAAATATATA
ATTTAATAAAATTCTT
Found at i:64906083 original size:157 final size:155
Alignment explanation
Indices: 64905746--64906067 Score: 349
Period size: 157 Copynumber: 2.0 Consensus size: 155
64905736 ATATATTTTA
* * * *
64905746 ATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * * * * ** *
64905811 TTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTACCAGAAATTTGTTTTGGTAAATT
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
* * * * *
64905876 ATTATTGTTATTGTTATTTAAATTTTG
131 ATAATTATTATTGATATATAAA--TAG
* *
64905903 ATAAGATTATTAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * **
64905968 TTATACTTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACA--CAAATATG-ATTTACT-A
64906033 AATCATAATATATTATATGATACTATAAA-AG
127 AATCATAAT-TATTAT-TGATA-TATAAATAG
64906064 ATAA
1 ATAA
64906068 TTTGAAATAA
Statistics
Matches: 137, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
157 102 0.74
159 4 0.03
160 4 0.03
161 13 0.09
162 5 0.04
163 4 0.03
164 5 0.04
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (155 bp):
ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
ATAATTATTATTGATATATAAATAG
Found at i:64906906 original size:13 final size:13
Alignment explanation
Indices: 64906888--64906917 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
64906878 CAATCAGCTA
64906888 AATTCAGAAAAAC
1 AATTCAGAAAAAC
64906901 AATTCAGAAAAAC
1 AATTCAGAAAAAC
64906914 AATT
1 AATT
64906918 ACATGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
AATTCAGAAAAAC
Found at i:64911751 original size:37 final size:37
Alignment explanation
Indices: 64911615--64911751 Score: 150
Period size: 37 Copynumber: 3.7 Consensus size: 37
64911605 GGCGGATGTA
** * * *
64911615 TAGCTCTTCGGAGCATTTAGCGTGTAACCGGTTGGAT
1 TAGCTCTTATGAGCATTTGGCGTGTTATCGGTTGGAT
* * **
64911652 TAGCTCTT-TGGAGCACTTGGAGTCCTATCGGTTGGAT
1 TAGCTCTTAT-GAGCATTTGGCGTGTTATCGGTTGGAT
*
64911689 TAGCTCTTATGAGCGTTTGGCGTGTTATCGGTTGGAT
1 TAGCTCTTATGAGCATTTGGCGTGTTATCGGTTGGAT
* *
64911726 TAACTCTTATGAACATTTGGCGTGTT
1 TAGCTCTTATGAGCATTTGGCGTGTT
64911752 TTGATTTGAT
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
37 81 0.99
38 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.37
Consensus pattern (37 bp):
TAGCTCTTATGAGCATTTGGCGTGTTATCGGTTGGAT
Found at i:64917808 original size:40 final size:40
Alignment explanation
Indices: 64917771--64917956 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
64917761 GCTACTCGTT
*
64917771 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
64917811 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
64917851 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
64917891 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AACTCGCA
64917932 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64917957 CATCATTCAA
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 112 0.87
41 14 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:64935367 original size:27 final size:26
Alignment explanation
Indices: 64935327--64935523 Score: 205
Period size: 27 Copynumber: 7.3 Consensus size: 26
64935317 GTGAGGTCAA
*
64935327 TAAAATGATTGAAATACCTCCATAGGG
1 TAAAATGATCGAAATACC-CCATAGGG
*
64935354 TAAAATGATCGAAATACCCTCATAAGG
1 TAAAATGATCGAAATACCC-CATAGGG
* *
64935381 TAAAATGACCGAAATACCCGTATAGGG
1 TAAAATGATCGAAATACCC-CATAGGG
* * *
64935408 TAAAATGATCGAAATACCACCGTACGA
1 TAAAATGATCGAAATACC-CCATAGGG
* * *
64935435 TAAAATGACCAAAATACCCCCATAAGG
1 TAAAATGATCGAAATA-CCCCATAGGG
64935462 TAAAATGATCGAAATACCCCCATAGGG
1 TAAAATGATCGAAATA-CCCCATAGGG
* * **
64935489 TAAAATGACCAAAATACCCCAGTACAG
1 TAAAATGATCGAAATACCCCA-TAGGG
64935516 TAAAATGA
1 TAAAATGA
64935524 CCAAAATGCC
Statistics
Matches: 143, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 6 0.04
27 134 0.94
28 3 0.02
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (26 bp):
TAAAATGATCGAAATACCCCATAGGG
Found at i:64935395 original size:54 final size:52
Alignment explanation
Indices: 64935338--64935523 Score: 228
Period size: 54 Copynumber: 3.4 Consensus size: 52
64935328 AAAATGATTG
*
64935338 AAATACCTCCATAGGGTAAAATGATCGAAATACCCTCATAAGGTAAAATGACCG
1 AAATACC-CCATAGGGTAAAATGATCGAAATACCC-CATAAGGTAAAATGACCA
* * * *
64935392 AAATACCCGTATAGGGTAAAATGATCGAAATACCACCGTACGATAAAATGACCA
1 AAATACCC-CATAGGGTAAAATGATCGAAATACC-CCATAAGGTAAAATGACCA
* *
64935446 AAATACCCCCATAAGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCA
1 AAATA-CCCCATAGGGTAAAATGATCGAAATA-CCCCATAAGGTAAAATGACCA
**
64935500 AAATACCCCAGTACAGTAAAATGA
1 AAATACCCCA-TAGGGTAAAATGA
64935524 CCAAAATGCC
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
53 6 0.05
54 103 0.90
55 6 0.05
ACGTcount: A:0.45, C:0.22, G:0.16, T:0.18
Consensus pattern (52 bp):
AAATACCCCATAGGGTAAAATGATCGAAATACCCCATAAGGTAAAATGACCA
Found at i:64935462 original size:81 final size:80
Alignment explanation
Indices: 64935327--64935535 Score: 258
Period size: 81 Copynumber: 2.6 Consensus size: 80
64935317 GTGAGGTCAA
* * * * * * *
64935327 TAAAATGATTGAAATACCTCCATAGGGTAAAATGATCGAAATACCCTCATAAGGTAAAATGACCG
1 TAAAATGATCGAAATACC-CCGTACGATAAAATGACCAAAATACCCCCATAAGGTAAAATGACCG
**
64935392 AAATACCCGTATAGGG
65 AAATACCCCCATAGGG
*
64935408 TAAAATGATCGAAATACCACCGTACGATAAAATGACCAAAATACCCCCATAAGGTAAAATGATCG
1 TAAAATGATCGAAATACC-CCGTACGATAAAATGACCAAAATACCCCCATAAGGTAAAATGACCG
64935473 AAATACCCCCATAGGG
65 AAATACCCCCATAGGG
* * *
64935489 TAAAATGACCAAAATACCCCAGTAC-AGTAAAATGACCAAAATGCCCC
1 TAAAATGATCGAAATACCCC-GTACGA-TAAAATGACCAAAATACCCC
64935536 TAAGAGATTA
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
80 3 0.03
81 109 0.97
ACGTcount: A:0.44, C:0.22, G:0.15, T:0.19
Consensus pattern (80 bp):
TAAAATGATCGAAATACCCCGTACGATAAAATGACCAAAATACCCCCATAAGGTAAAATGACCGA
AATACCCCCATAGGG
Found at i:64935727 original size:26 final size:26
Alignment explanation
Indices: 64935698--64935752 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
64935688 TCTGCCATAT
64935698 ATACTATTACTAGCAGCTTTGCTGTG
1 ATACTATTACTAGCAGCTTTGCTGTG
*
64935724 ATACTATTACTGGCAGCTTTGCTGTG
1 ATACTATTACTAGCAGCTTTGCTGTG
64935750 ATA
1 ATA
64935753 TTAGTGTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (26 bp):
ATACTATTACTAGCAGCTTTGCTGTG
Found at i:64939586 original size:18 final size:18
Alignment explanation
Indices: 64939560--64939594 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
64939550 TGTTTATCAT
*
64939560 AACACTTGATCATACATC
1 AACAATTGATCATACATC
64939578 AACAATTGATCATACAT
1 AACAATTGATCATACAT
64939595 TTTCTTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.29
Consensus pattern (18 bp):
AACAATTGATCATACATC
Found at i:64954178 original size:50 final size:50
Alignment explanation
Indices: 64954083--64954227 Score: 139
Period size: 50 Copynumber: 2.8 Consensus size: 50
64954073 AGACCCCATG
* **
64954083 TAAGACCATGTATGGGACATGGCATTGGCATTATTGAGGTTATGAGAGGTCCCACA
1 TAAGACCATGTTTGGGACATGGCATTGG---TACCGA-G--ATGAGAGGTCCCACA
* *
64954139 TAAGACCATGTTTGGGACATGGCATTGGTACCGAGATGAGAGGTCCCCCG
1 TAAGACCATGTTTGGGACATGGCATTGGTACCGAGATGAGAGGTCCCACA
* * * *
64954189 TAAGACCAT-TTCTAGGACATGGCATGGGCACCGATATGA
1 TAAGACCATGTT-TGGGACATGGCATTGGTACCGAGATGA
64954228 AAACTCTCAT
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
49 2 0.03
50 45 0.57
52 1 0.01
53 4 0.05
56 27 0.34
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (50 bp):
TAAGACCATGTTTGGGACATGGCATTGGTACCGAGATGAGAGGTCCCACA
Found at i:64959350 original size:43 final size:43
Alignment explanation
Indices: 64959238--64959466 Score: 271
Period size: 43 Copynumber: 5.3 Consensus size: 43
64959228 TTATTTGAAA
* * * *** *
64959238 AAACGCTGCTATAGAACATGGCCTTTAGCGGCGCTTTTATAAAA
1 AAACGCCGCTAAAGAACATGGCCTTTAGCGGTGC-TTTACCCAC
* * *
64959282 AAATGTCGCTAAAGAACATGACCTTTAGCGGTGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGGCCTTTAGCGGTGCTTTACCCAC
* *
64959325 AAACGCCGCTAAAAAACATGGCCTTTAACGGTGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGGCCTTTAGCGGTGCTTTACCCAC
*
64959368 AAACACCGCTAAAGAACATGGCCTTTAGCGGTGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGGCCTTTAGCGGTGCTTTACCCAC
* *** *
64959411 AAACGCCGCTAAAGAACATGACCTTTAGCAACGCTTTTA-TCAC
1 AAACGCCGCTAAAGAACATGGCCTTTAGCGGTGC-TTTACCCAC
64959454 AAACGCCGCTAAA
1 AAACGCCGCTAAA
64959467 AGTACCATTT
Statistics
Matches: 160, Mismatches: 24, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
43 128 0.80
44 32 0.20
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGGCCTTTAGCGGTGCTTTACCCAC
Found at i:64961628 original size:13 final size:13
Alignment explanation
Indices: 64961591--64961628 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
64961581 GAGATATATG
64961591 TAATTTGAAAACT
1 TAATTTGAAAACT
*
64961604 TAAGTCTGAAAACT
1 TAA-TTTGAAAACT
64961618 TAATTTGAAAA
1 TAATTTGAAAA
64961629 TTTGGAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:64961948 original size:34 final size:34
Alignment explanation
Indices: 64961866--64962076 Score: 242
Period size: 34 Copynumber: 6.1 Consensus size: 34
64961856 TCACTTGTCT
* * * *
64961866 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
*
64961900 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
* **
64961935 TTTCTTGCAGGGAATCTTTCCTGTTCATGCATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
* * ** *
64961969 TTTCTTGCAAGGAATCTTTCCTGTTCACGTATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
* * *
64962003 TTTTGTTGCAGGAAATTTCTCCTGTTCACACATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
* *
64962038 TTTCTTGCAGGGAATCTCTCTTGTTCATACATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
64962072 TTTCT
1 TTTCT
64962077 GGTATTATTT
Statistics
Matches: 149, Mismatches: 26, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
34 94 0.63
35 55 0.37
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.42
Consensus pattern (34 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
Found at i:64962012 original size:69 final size:68
Alignment explanation
Indices: 64961865--64962074 Score: 260
Period size: 69 Copynumber: 3.0 Consensus size: 68
64961855 TTCACTTGTC
* *
64961865 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAAT-TTTCCTGTTCACGCATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACA
64961930 CATCA
64 CATCA
* * * **
64961935 -TTTCTTGCAGGGAATCTTTCCTGTTCATGCATCATTTCTTGCAAGGAATCTTTCCTGTTCACGT
1 TTTTCTTGCAGGGAAT-TTTCCTGTTCACGCATCATTTCTTGCAGGGAATCTCTCCTGTTCACAC
*
64961999 ATTA
65 ATCA
* * * * *
64962003 TTTTGTTGCAGGAAATTTCTCCTGTTCACACATCATTTCTTGCAGGGAATCTCTCTTGTTCATAC
1 TTTTCTTGCAGGGAATTT-TCCTGTTCACGCATCATTTCTTGCAGGGAATCTCTCCTGTTCACAC
64962068 ATCA
65 ATCA
64962072 TTT
1 TTT
64962075 CTGGTATTAT
Statistics
Matches: 118, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
68 30 0.25
69 88 0.75
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (68 bp):
TTTTCTTGCAGGGAATTTTCCTGTTCACGCATCATTTCTTGCAGGGAATCTCTCCTGTTCACACA
TCA
Found at i:64962090 original size:103 final size:103
Alignment explanation
Indices: 64961866--64962076 Score: 350
Period size: 103 Copynumber: 2.0 Consensus size: 103
64961856 TCACTTGTCT
* * *
64961866 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
1 TTTCTTGCAAGGAATCTTTCCTGTTCACGCATTATTTTGTTGCAGGAAATCTCTCCTGTTCACAC
* *
64961931 ATCATTTCTTGCAGGGAATCTTTCCTGTTCATGCATCA
66 ATCATTTCTTGCAGGGAATCTCTCCTGTTCATACATCA
* *
64961969 TTTCTTGCAAGGAATCTTTCCTGTTCACGTATTATTTTGTTGCAGGAAATTTCTCCTGTTCACAC
1 TTTCTTGCAAGGAATCTTTCCTGTTCACGCATTATTTTGTTGCAGGAAATCTCTCCTGTTCACAC
*
64962034 ATCATTTCTTGCAGGGAATCTCTCTTGTTCATACATCA
66 ATCATTTCTTGCAGGGAATCTCTCCTGTTCATACATCA
64962072 TTTCT
1 TTTCT
64962077 GGTATTATTT
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.42
Consensus pattern (103 bp):
TTTCTTGCAAGGAATCTTTCCTGTTCACGCATTATTTTGTTGCAGGAAATCTCTCCTGTTCACAC
ATCATTTCTTGCAGGGAATCTCTCCTGTTCATACATCA
Found at i:64969239 original size:13 final size:13
Alignment explanation
Indices: 64969204--64969241 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
64969194 GAGATATTTG
64969204 TAATTTGAAAACT
1 TAATTTGAAAACT
64969217 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
64969231 TAATTTGAAAA
1 TAATTTGAAAA
64969242 TTTGGAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:64971747 original size:20 final size:21
Alignment explanation
Indices: 64971709--64971747 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
64971699 CATTGACACC
*
64971709 CATAGGCATGATATGTAAAAT
1 CATAGGCATAATATGTAAAAT
*
64971730 CATAGGC-TAATATTTAAA
1 CATAGGCATAATATGTAAA
64971748 CTGCTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (21 bp):
CATAGGCATAATATGTAAAAT
Found at i:64973677 original size:14 final size:14
Alignment explanation
Indices: 64973658--64973691 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
64973648 AACCTTAAAT
64973658 CCCTAAC-TCTTAAC
1 CCCTAACGTC-TAAC
64973672 CCCTAACGTCTAAC
1 CCCTAACGTCTAAC
64973686 CCCTAA
1 CCCTAA
64973692 ACCTTAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.89
15 2 0.11
ACGTcount: A:0.29, C:0.44, G:0.03, T:0.24
Consensus pattern (14 bp):
CCCTAACGTCTAAC
Found at i:64973707 original size:21 final size:21
Alignment explanation
Indices: 64973683--64973763 Score: 60
Period size: 21 Copynumber: 3.8 Consensus size: 21
64973673 CCTAACGTCT
64973683 AACCCCTAAACCTTAAATCTC
1 AACCCCTAAACCTTAAATCTC
* *
64973704 AACCCTTAAACCAT-AATCTC
1 AACCCCTAAACCTTAAATCTC
* * *
64973724 TAATCCAT-AATCTCTAAATC-C
1 -AACCCCTAAACCT-TAAATCTC
64973745 ATACTCCCTAAACCTTAAA
1 A-AC-CCCTAAACCTTAAA
64973764 ATATGAACTC
Statistics
Matches: 45, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
20 10 0.22
21 20 0.44
22 11 0.24
23 4 0.09
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (21 bp):
AACCCCTAAACCTTAAATCTC
Found at i:64973745 original size:15 final size:15
Alignment explanation
Indices: 64973710--64973747 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
64973700 TCTCAACCCT
64973710 TAAA-CCATAATCTC
1 TAAATCCATAATCTC
64973724 T-AATCCATAATCTC
1 TAAATCCATAATCTC
64973738 TAAATCCATA
1 TAAATCCATA
64973748 CTCCCTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 12 0.55
15 8 0.36
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAATCCATAATCTC
Found at i:64973755 original size:15 final size:15
Alignment explanation
Indices: 64973710--64973756 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
64973700 TCTCAACCCT
*
64973710 TAAA-CCATAATCTC
1 TAAATCCATAATCCC
*
64973724 T-AATCCATAATCTC
1 TAAATCCATAATCCC
*
64973738 TAAATCCATACTCCC
1 TAAATCCATAATCCC
64973753 TAAA
1 TAAA
64973757 CCTTAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 2 0.07
14 12 0.41
15 15 0.52
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:64973975 original size:14 final size:14
Alignment explanation
Indices: 64973953--64974009 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
64973943 CCCTTAATGT
64973953 CTAACCCCTAAACCC
1 CTAA-CCCTAAACCC
*
64973968 CTAACCCTTAACCC
1 CTAACCCTAAACCC
* *
64973982 CTAAACCTTAAATCC
1 CT-AACCCTAAACCC
64973997 C-AACCCTTAAACC
1 CTAACCC-TAAACC
64974010 ATAATCCCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
13 4 0.12
14 16 0.47
15 14 0.41
ACGTcount: A:0.35, C:0.46, G:0.00, T:0.19
Consensus pattern (14 bp):
CTAACCCTAAACCC
Found at i:64974007 original size:21 final size:20
Alignment explanation
Indices: 64973955--64974017 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
64973945 CTTAATGTCT
*
64973955 AACCCCTAAACCCCTAA-CCC
1 AACCCCTAAA-CCATAATCCC
*
64973975 TTAACCCCTAAACCTTAAATCCC
1 --AACCCCTAAACCAT-AATCCC
*
64973998 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
64974018 TAATCCATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.17
21 15 0.42
22 12 0.33
23 3 0.08
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.19
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:64974025 original size:14 final size:14
Alignment explanation
Indices: 64974008--64974049 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
64973998 AACCCTTAAA
64974008 CCATAATCCCTAAT
1 CCATAATCCCTAAT
64974022 CCATAATCCCTAAAT
1 CCATAATCCCT-AAT
* *
64974037 TCATACTCCCTAA
1 CCATAATCCCTAA
64974050 ACCTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:64974046 original size:15 final size:15
Alignment explanation
Indices: 64974004--64974050 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
64973994 TCCCAACCCT
64974004 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
64974018 T-AATCCATAATCCC
1 TAAATCCATAATCCC
* *
64974032 TAAATTCATACTCCC
1 TAAATCCATAATCCC
64974047 TAAA
1 TAAA
64974051 CCTTAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 2 0.07
14 12 0.41
15 15 0.52
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:64974046 original size:294 final size:285
Alignment explanation
Indices: 64973546--64974123 Score: 808
Period size: 294 Copynumber: 2.0 Consensus size: 285
64973536 CAATATATTT
* **
64973546 AATTTATTATTATCTCTTTTTTAATTATATAAGAACATATTTAAAATATAAATTAAAAAATTAAT
1 AATTTATTATTATCTCCTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATTAAT
* * *
64973611 CTAAACCCAAAACCCTAACCCGAGCCCTGAATTCCTAAACCTTAAATCCCTAACTCTTAACCCCT
66 CTAAACCCAAAACCCTAACCCGAGCCCTAAATTCCTAAACCTTAAATCCCTAACCCTAAACCCCT
* * * *
64973676 AACGTCTAACCCCTAAACCTTAAATCTCAACCCTTAAACCATAATCTCTAATCCATAATCTCTAA
131 AACCTCTAACCCCTAAACCTTAAATCCCAACCCTTAAACCATAATCCCTAATCCATAATCCCTAA
*
64973741 ATCCATACTCCCTAAACCTTAAAATA-TGAACTCCTAAA-TCGGCCTTAAATCTTAAATTAATCA
196 ATCCATACTCCCTAAACCTTAAAATAGT-AACTCCTAAACT-GGCCTTAAATCTTAAATAAATCA
*
64973804 TATACCCTAAA-CTAAAACCCTAAACA
259 TATACCCTAAACCAAAAACCCTAAACA
64973830 AATTTATTATTATCTCCTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATT
1 AATTTATTATTATCTCCTTTACAATTATATAAGAACATATTTAAAATATAAATT--AAAA-AATT
* * **
64973895 AATCTAAACCTAAAACCCTAACCCG-GCCCCTAAATCCCT-AACTCTTAACCCTTAATGTCTAAC
63 AATCTAAACCCAAAACCCTAACCCGAG-CCCTAAATTCCTAAAC-CTT-A-----AATCCCTAA-
64973958 CCCTAAACCCCTAACC-CTTAACCCCTAAACCTTAAATCCCAACCCTTAAACCATAATCCCTAAT
119 CCCTAAACCCCTAACCTC-TAACCCCTAAACCTTAAATCCCAACCCTTAAACCATAATCCCTAAT
*
64974022 CCATAATCCCTAAATTCATACTCCCTAAACCTTAAAATAGTAACTCCTAAACTGGCCTTAAATCT
183 CCATAATCCCTAAATCCATACTCCCTAAACCTTAAAATAGTAACTCCTAAACTGGCCTTAAATCT
* *
64974087 TAAATAAATCATATACCTTAAACCAAAAATCCTAAAC
248 TAAATAAATCATATACCCTAAACCAAAAACCCTAAAC
64974124 TATAGTGATA
Statistics
Matches: 259, Mismatches: 19, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
284 51 0.20
286 8 0.03
287 41 0.16
288 1 0.00
293 8 0.03
294 136 0.53
295 14 0.05
ACGTcount: A:0.41, C:0.27, G:0.03, T:0.29
Consensus pattern (285 bp):
AATTTATTATTATCTCCTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATTAAT
CTAAACCCAAAACCCTAACCCGAGCCCTAAATTCCTAAACCTTAAATCCCTAACCCTAAACCCCT
AACCTCTAACCCCTAAACCTTAAATCCCAACCCTTAAACCATAATCCCTAATCCATAATCCCTAA
ATCCATACTCCCTAAACCTTAAAATAGTAACTCCTAAACTGGCCTTAAATCTTAAATAAATCATA
TACCCTAAACCAAAAACCCTAAACA
Found at i:64974452 original size:41 final size:41
Alignment explanation
Indices: 64974399--64974557 Score: 158
Period size: 41 Copynumber: 3.9 Consensus size: 41
64974389 AAAAAAAATT
* * * *
64974399 TTAGCGGTGCTTTTTAAAAAACAACGCTAAAACACCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACACCGCTAAAACCCCGAGCA
* ** *
64974440 TTAGTGGCGCTTTTTCAAAAATGCCGCGAAAACCCCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACACCGCTAAAACCCCGAGCA
** * *
64974481 TTAGCGGTACATTTTCAAAAACACCGCTAAAGCCCCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACACCGCTAAAACCCCGAGCA
* * * *
64974522 TTAGCAGCGCTTTCTT-GAAAACGCCGCTAAAGCCCC
1 TTAGCGGCGCTTT-TTCAAAAACACCGCTAAAACCCC
64974558 TAAAGGTAAG
Statistics
Matches: 95, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 93 0.98
42 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACACCGCTAAAACCCCGAGCA
Found at i:64974548 original size:82 final size:82
Alignment explanation
Indices: 64974399--64974557 Score: 194
Period size: 82 Copynumber: 1.9 Consensus size: 82
64974389 AAAAAAAATT
* * ** *
64974399 TTAGCGGTGCTTTTTAAAAAACAACGCTAAAACACCGAGCATTAGTGGCGCTTTTTCAAAAATGC
1 TTAGCGGTACATTTTAAAAAACAACGCTAAAACACCGAGCATTAGCAGCGCTTTTTCAAAAACGC
64974464 CGCGAAAACCCCGAGCA
66 CGCGAAAACCCCGAGCA
* * * * *
64974481 TTAGCGGTACATTTTCAAAAACACCGCTAAAGCCCCGAGCATTAGCAGCGCTTTCTT-GAAAACG
1 TTAGCGGTACATTTTAAAAAACAACGCTAAAACACCGAGCATTAGCAGCGCTTT-TTCAAAAACG
* *
64974545 CCGCTAAAGCCCC
65 CCGCGAAAACCCC
64974558 TAAAGGTAAG
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
82 62 0.97
83 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (82 bp):
TTAGCGGTACATTTTAAAAAACAACGCTAAAACACCGAGCATTAGCAGCGCTTTTTCAAAAACGC
CGCGAAAACCCCGAGCA
Found at i:64977584 original size:50 final size:50
Alignment explanation
Indices: 64977467--64977639 Score: 175
Period size: 50 Copynumber: 3.3 Consensus size: 50
64977457 AGAACTCATA
* ** *
64977467 TAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGGTCCCAAG
1 TAAGACCATGTCTGGGACATGGCGTTGG---TACCGA-G--ATGAGAAGTCCCAAG
* **
64977523 TAAGACTATGTCTGGGACATGGCGTTGGTACCGAGATGAGAAGTCCCCCG
1 TAAGACCATGTCTGGGACATGGCGTTGGTACCGAGATGAGAAGTCCCAAG
* * * * *
64977573 TAAGACCATGTCTGGGACATGGCGTTGGCACCGATATGAGAACTCTCATG
1 TAAGACCATGTCTGGGACATGGCGTTGGTACCGAGATGAGAAGTCCCAAG
*
64977623 TAAGACCATATCTGGGA
1 TAAGACCATGTCTGGGA
64977640 TATGACATTT
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
50 71 0.70
52 1 0.01
53 4 0.04
56 26 0.25
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCGTTGGTACCGAGATGAGAAGTCCCAAG
Found at i:64981324 original size:22 final size:23
Alignment explanation
Indices: 64981291--64981334 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
64981281 TCTATTAAAA
64981291 ATTATTAAAATTAATCAAAATTT
1 ATTATTAAAATTAATCAAAATTT
*
64981314 ATTA-TAAAATTAATTAAAATT
1 ATTATTAAAATTAATCAAAATT
64981335 CAACACGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTATTAAAATTAATCAAAATTT
Found at i:64981333 original size:10 final size:10
Alignment explanation
Indices: 64981288--64981334 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
64981278 GAATCTATTA
64981288 AAAATT-ATT
1 AAAATTAATT
*
64981297 AAAATTAATC
1 AAAATTAATT
*
64981307 AAAATTTATTAT
1 AAAA-TTAAT-T
64981319 AAAATTAATT
1 AAAATTAATT
64981329 AAAATT
1 AAAATT
64981335 CAACACGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 6 0.19
10 13 0.42
11 8 0.26
12 4 0.13
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
AAAATTAATT
Found at i:64989507 original size:6 final size:6
Alignment explanation
Indices: 64989469--64989501 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
64989459 TAAGTTTTCA
*
64989469 AAAATG GAAATG AAAATG AAAATG AAAATG AAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAA
64989502 TGGAAACTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:64994416 original size:38 final size:39
Alignment explanation
Indices: 64994326--64994432 Score: 137
Period size: 38 Copynumber: 2.8 Consensus size: 39
64994316 GTGCTCATGT
* * *
64994326 TTGTACTTTGGTACCCGTAAATGCACA-ATTGTGCCCCTA
1 TTGTACTTTGGTACCCCTAAATGCATATA-TGTGACCCTA
* * *
64994365 TTGCACTTCGGTACCCCTGAATGCATATATGT-ACCCTA
1 TTGTACTTTGGTACCCCTAAATGCATATATGTGACCCTA
64994403 TTGTACTTTGGTACCCCTAAATGCATATAT
1 TTGTACTTTGGTACCCCTAAATGCATATAT
64994433 ATGCCCCTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
38 32 0.55
39 25 0.43
40 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (39 bp):
TTGTACTTTGGTACCCCTAAATGCATATATGTGACCCTA
Found at i:64996008 original size:27 final size:26
Alignment explanation
Indices: 64995970--64996275 Score: 328
Period size: 27 Copynumber: 11.3 Consensus size: 26
64995960 AATGGGCCTC
64995970 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGA-CGAAATACCCTCGAAGGG
*
64995997 TAAAATGATCGAAAGACCCTCGAAGGG
1 TAAAATGA-CGAAATACCCTCGAAGGG
64996024 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGA-CGAAATACCCTCGAAGGG
* * *
64996051 TAAAATGACTGAAATACCTTCGATGGA
1 TAAAATGAC-GAAATACCCTCGAAGGG
* * *
64996078 TAAAATGACCGAAATACCTTTGATGGG
1 TAAAATGA-CGAAATACCCTCGAAGGG
**
64996105 TAAAATGACTGAAATACCCTTAAAGGG
1 TAAAATGAC-GAAATACCCTCGAAGGG
* *
64996132 TAAAATGACTAAAATACCCTCGATGGG
1 TAAAATGAC-GAAATACCCTCGAAGGG
*
64996159 TAAAATGACCGAAATACCCTCGATGGG
1 TAAAATGA-CGAAATACCCTCGAAGGG
*
64996186 TAAAATGACCGAAATACCC-CTGAAAGG
1 TAAAATGA-CGAAATACCCTC-GAAGGG
* *
64996213 AAAAATGATCGAAATACCCCCGAAGGG
1 TAAAATGA-CGAAATACCCTCGAAGGG
* *
64996240 TAAATTGACTGAAATA-CCTCCATAGGG
1 TAAAATGAC-GAAATACCCTCGA-AGGG
64996267 TAAAATGAC
1 TAAAATGAC
64996276 TGCTATACCC
Statistics
Matches: 245, Mismatches: 26, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
26 8 0.03
27 234 0.96
28 3 0.01
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.20
Consensus pattern (26 bp):
TAAAATGACGAAATACCCTCGAAGGG
Found at i:64996106 original size:81 final size:81
Alignment explanation
Indices: 64995970--64996275 Score: 377
Period size: 81 Copynumber: 3.8 Consensus size: 81
64995960 AATGGGCCTC
* * *
64995970 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGATCGAAAGACCCTCGAAGGGTAAAATGACCG
1 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGATGGGTAAAATGACCG
64996035 AAATACCCTCGAAGGG
66 AAATACCCTCGAAGGG
* * * * * *
64996051 TAAAATGA-CTGAAATACCTTCGATGGATAAAATGACCGAAATACCTTTGATGGGTAAAATGACT
1 TAAAATGATC-GAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGATGGGTAAAATGACC
**
64996115 GAAATACCCTTAAAGGG
65 GAAATACCCTCGAAGGG
* *
64996132 TAAAATGA-CTAAAATACCCTCGATGGGTAAAATGACCGAAATACCCTCGATGGGTAAAATGACC
1 TAAAATGATC-GAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGATGGGTAAAATGACC
*
64996196 GAAATACCC-CTGAAAGG
65 GAAATACCCTC-GAAGGG
* * * * *
64996213 AAAAATGATCGAAATACCCCCGAAGGGTAAATTGACTGAAATA-CCTCCATAGGGTAAAATGAC
1 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAT-GGGTAAAATGAC
64996276 TGCTATACCC
Statistics
Matches: 194, Mismatches: 27, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
80 7 0.04
81 186 0.96
82 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.20
Consensus pattern (81 bp):
TAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGATGGGTAAAATGACCG
AAATACCCTCGAAGGG
Found at i:64996481 original size:26 final size:26
Alignment explanation
Indices: 64996452--64996553 Score: 125
Period size: 26 Copynumber: 3.9 Consensus size: 26
64996442 TTGCCACAAA
* *
64996452 TACTGTTACTGGAAGCTTTGCTACGT
1 TACTGTTACTGGAAGCTTTGCTGCAT
* *
64996478 TACTGATACTGGCAGCTTTGCTGCAT
1 TACTGTTACTGGAAGCTTTGCTGCAT
*
64996504 TACTGTTACTGGCAGCTTTGCTGCAT
1 TACTGTTACTGGAAGCTTTGCTGCAT
* *
64996530 TACTATTGCTGGCAA-CTTTGCTGC
1 TACTGTTACTGG-AAGCTTTGCTGC
64996554 TATATTAGTG
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 66 0.99
27 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
TACTGTTACTGGAAGCTTTGCTGCAT
Found at i:64996508 original size:52 final size:52
Alignment explanation
Indices: 64996452--64996553 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 52
64996442 TTGCCACAAA
* *
64996452 TACTGTTACTGGAAGCTTTGCTACGTTACTGA-TACTGGCAGCTTTGCTGCAT
1 TACTGTTACTGGAAGCTTTGCTACATTACT-ATTACTGGCAACTTTGCTGCAT
* * *
64996504 TACTGTTACTGGCAGCTTTGCTGCATTACTATTGCTGGCAACTTTGCTGC
1 TACTGTTACTGGAAGCTTTGCTACATTACTATTACTGGCAACTTTGCTGC
64996554 TATATTAGTG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 1 0.02
52 43 0.98
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (52 bp):
TACTGTTACTGGAAGCTTTGCTACATTACTATTACTGGCAACTTTGCTGCAT
Found at i:64996731 original size:30 final size:30
Alignment explanation
Indices: 64996660--64996746 Score: 115
Period size: 30 Copynumber: 2.9 Consensus size: 30
64996650 ACTGCATTTG
*
64996660 TCTGTTACTGCATTGGGCTAAGGCCCACAC
1 TCTGTTACTGTATTGGGCTAAGGCCCACAC
64996690 TCTGTTACTGTATTGGGCTAAGGCCCACAC
1 TCTGTTACTGTATTGGGCTAAGGCCCACAC
* *
64996720 AT-TGCTT-CTGTATGGGGCTCAGGCCCA
1 -TCTG-TTACTGTATTGGGCTAAGGCCCA
64996747 GACTGATTCT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
30 49 0.94
31 3 0.06
ACGTcount: A:0.18, C:0.28, G:0.25, T:0.29
Consensus pattern (30 bp):
TCTGTTACTGTATTGGGCTAAGGCCCACAC
Found at i:65002239 original size:50 final size:49
Alignment explanation
Indices: 65002142--65002328 Score: 162
Period size: 50 Copynumber: 3.8 Consensus size: 49
65002132 TATTGAGGTT
* * * ** * *
65002142 ATGAGAGGTCCCACGAAAGACCATGTCTGGGACATGGTGTTTTCACCGAG
1 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGG-CATTGCACCGAC
* * *
65002192 ATGAAAGGTCCCATGTAAGACCATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCAT-TGCACCGAC
* * * * *
65002242 ATGAGAA-CTCCCATATAAGACCATATCTGGGATATGGCATTG-ACAGTAC
1 ATGA-AAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGCACCG-AC
* **
65002291 AGGAAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGC
65002329 TTTGGCATGT
Statistics
Matches: 111, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
48 5 0.05
49 33 0.30
50 71 0.64
51 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.21
Consensus pattern (49 bp):
ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGCACCGAC
Found at i:65002320 original size:49 final size:50
Alignment explanation
Indices: 65002200--65002328 Score: 147
Period size: 49 Copynumber: 2.6 Consensus size: 50
65002190 AGATGAAAGG
* * * *
65002200 TCCCATGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACAGACAGGAGAAC
* * * *
65002250 TCCCATATAAGACCATATCTGGGATATGGCAT-TG-ACAGTACAGGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACAG-ACAGGAGAAC
65002298 ATCCCATGTAAGACCATGTCTGGGACATGGC
1 -TCCCATGTAAGACCATGTCTGGGACATGGC
65002329 TTTGGCATGT
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
48 6 0.09
49 32 0.48
50 28 0.42
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACAGACAGGAGAAC
Found at i:65002564 original size:20 final size:20
Alignment explanation
Indices: 65002539--65002577 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
65002529 TGAGTTATTT
65002539 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
65002559 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
65002578 GAAAAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:65018796 original size:23 final size:23
Alignment explanation
Indices: 65018765--65018815 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
65018755 ACTCACTTTC
* * *
65018765 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
65018788 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
65018811 TTACA
1 TTACA
65018816 TAGCTAGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:65018979 original size:46 final size:46
Alignment explanation
Indices: 65018891--65018979 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
65018881 AAATCAGTAG
* * **
65018891 GAAAAATAAACTTATCAACTCTTACCAAAACATCCTTGATCTTTCC
1 GAAAAATAAAATTATCAACTCTTACCAAAACATCATCAATCTTTCC
*
65018937 GAAAAATAAAATTATCAACTCTTACCAAGACATCATCAATCTT
1 GAAAAATAAAATTATCAACTCTTACCAAAACATCATCAATCTT
65018980 CCTCTCGGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.43, C:0.24, G:0.04, T:0.29
Consensus pattern (46 bp):
GAAAAATAAAATTATCAACTCTTACCAAAACATCATCAATCTTTCC
Found at i:65021155 original size:16 final size:15
Alignment explanation
Indices: 65021136--65021179 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
65021126 AAGGTTATTA
*
65021136 AAGTAAATTAATAAAT
1 AAGTAAAGTAA-AAAT
65021152 AAGTTAAAGTAAAAAT
1 AAG-TAAAGTAAAAAT
*
65021168 AAGTAAAATAAA
1 AAGTAAAGTAAA
65021180 TATATCATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 8 0.32
16 10 0.40
17 7 0.28
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (15 bp):
AAGTAAAGTAAAAAT
Found at i:65021977 original size:20 final size:19
Alignment explanation
Indices: 65021952--65022008 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 19
65021942 GCACAGCGTG
65021952 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTC-GTA
* * * *
65021972 CCCCTGAATTGCACATACGTG
1 CCCCTG-TTTGTAC-TTCGTA
65021993 CCCCTGTTTGTACTTC
1 CCCCTGTTTGTACTTC
65022009 ACTACCTCTA
Statistics
Matches: 28, Mismatches: 7, Indels: 5
0.70 0.17 0.12
Matches are distributed among these distances:
19 2 0.07
20 11 0.39
21 13 0.46
22 2 0.07
ACGTcount: A:0.14, C:0.33, G:0.18, T:0.35
Consensus pattern (19 bp):
CCCCTGTTTGTACTTCGTA
Found at i:65021996 original size:41 final size:41
Alignment explanation
Indices: 65021939--65022159 Score: 282
Period size: 41 Copynumber: 5.4 Consensus size: 41
65021929 TTATAGTATG
*
65021939 ATTGCACA-GCGTGCCCCTGTTTGTACTTCGGTACCCCTGA
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGA
** * *
65021979 ATTGCACATACGTGCCCCTGTTTGTACTTCACTACCTCTAA
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGA
* * *
65022020 ATTGCACATATGTGCCCCTGTTTGTGCTTCGGTACTCCTGA
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGA
* * *
65022061 ATTACACATACGTGCCCCTGTTTGTGCTTCGGTACCCTTGA
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGA
* * * *
65022102 ATTGCACATACGTGCTCTTGTTTGTACTTCGATACCCTTGA
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGA
* *
65022143 GTTGCACATATGTGCCC
1 ATTGCACATACGTGCCC
65022160 TAATTTTGAA
Statistics
Matches: 156, Mismatches: 24, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 8 0.05
41 148 0.95
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.34
Consensus pattern (41 bp):
ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGA
Found at i:65027604 original size:5 final size:5
Alignment explanation
Indices: 65027594--65027618 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
65027584 CCCAACCGCG
65027594 TGTTT TGTTT TGTTT TGTTT TGTTT
1 TGTTT TGTTT TGTTT TGTTT TGTTT
65027619 CCATCACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
TGTTT
Found at i:65028610 original size:3 final size:3
Alignment explanation
Indices: 65028604--65028636 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
65028594 AAAACATAGA
65028604 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65028637 GAGAGGAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:65030531 original size:75 final size:75
Alignment explanation
Indices: 65030344--65031096 Score: 637
Period size: 75 Copynumber: 10.0 Consensus size: 75
65030334 TATGAAATCG
* * * * * * *
65030344 AGCGAACTGTTA-AAATATCGAAGGTCACAATCTTAAATTGAGCAAACCTTAATAATATCAGTTG
1 AGCGAGCTGTTAGAAA-ATTGAGGGTCACGATCTTAAA-TCAGCAAACCGTAAAAATATCAGTTG
65030408 TGAACGTAGTAGGTC
64 TGAAC---GTAGGTC
* * ** * * * **
65030423 AACGAGCTGTTAAAAAATTGAGGGTTGCAATCTTAAATTAGCAAACGGTAAAAATATCAAATGTG
1 AGCGAGCTGTTAGAAAATTGAGGGTCACGATCTTAAATCAGCAAACCGTAAAAATATCAGTTGTG
65030488 AACGTAGGTC
66 AACGTAGGTC
** * * * * * * * *
65030498 AATGAGCAGTTAGCAAATTGAGGGTCAGGATCTTAAATCAACAGATCG-AAAAAGTTTTAGTTGT
1 AGCGAGCTGTTAGAAAATTGAGGGTCACGATCTTAAATCAGCAAACCGTAAAAA-TATCAGTTGT
65030562 GAACGTAGGTC
65 GAACGTAGGTC
** * * * * * ** *
65030573 AGTAAGCTGTTAGAAAATTGAGAGTCGCAATCTGAAATTAGCGGACCGTAAAAATATTAGTTGTG
1 AGCGAGCTGTTAGAAAATTGAGGGTCACGATCTTAAATCAGCAAACCGTAAAAATATCAGTTGTG
65030638 AACGTAGGTC
66 AACGTAGGTC
* * ** * * **
65030648 AGCGAGCTGTTAGAAAATCGAGGGTCACAATCTTAAATCAGCGGACCTTAAAAATGTCAACTGTG
1 AGCGAGCTGTTAGAAAATTGAGGGTCACGATCTTAAATCAGCAAACCGTAAAAATATCAGTTGTG
*
65030713 AATGTAGGTC
66 AACGTAGGTC
* * * * *
65030723 AGCGAGCTATTAGAAAATCGAGGGTTACGATCTTAAATCAGCAGACCATAAAAATATCAGTTGTG
1 AGCGAGCTGTTAGAAAATTGAGGGTCACGATCTTAAATCAGCAAACCGTAAAAATATCAGTTGTG
*
65030788 AACGTAGGTT
66 AACGTAGGTC
*** * ** * *** *
65030798 AGCGAGCTGTTAGAAAGCCGAGGATTGCAATCTTAAATCAATGAACCATAAAAATATCAGTTGTG
1 AGCGAGCTGTTAGAAAATTGAGGGTCACGATCTTAAATCAGCAAACCGTAAAAATATCAGTTGTG
* *
65030863 AACATAAGTC
66 AACGTAGGTC
* * * ** *
65030873 AGCGAGATGTTAGAAAATTGAGGGTCACGATCTTAAATTAGCAGATTGTAAAAATATCAATTGTG
1 AGCGAGCTGTTAGAAAATTGAGGGTCACGATCTTAAATCAGCAAACCGTAAAAATATCAGTTGTG
* *
65030938 AACATAGGTT
66 AACGTAGGTC
* ** * * * *
65030948 AGCGAGCTGTTAGAAAATTGAGGGTCGCGATCTTAAATCAATAGACCGAAAAAATATCAGCTATG
1 AGCGAGCTGTTAGAAAATTGAGGGTCACGATCTTAAATCAGCAAACCGTAAAAATATCAGTTGTG
*
65031013 AATGTAGGTC
66 AACGTAGGTC
* * * * * * * *
65031023 AGTGAGATGATAGAAAACTAAGGGTCGCGATCTTAAATCAGCGAACCATAAAAATATCAGTTGTG
1 AGCGAGCTGTTAGAAAATTGAGGGTCACGATCTTAAATCAGCAAACCGTAAAAATATCAGTTGTG
*
65031088 AACATAGGT
66 AACGTAGGT
65031097 TAGCAAATTG
Statistics
Matches: 544, Mismatches: 127, Indels: 10
0.80 0.19 0.01
Matches are distributed among these distances:
74 5 0.01
75 479 0.88
76 5 0.01
78 25 0.05
79 27 0.05
80 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.26
Consensus pattern (75 bp):
AGCGAGCTGTTAGAAAATTGAGGGTCACGATCTTAAATCAGCAAACCGTAAAAATATCAGTTGTG
AACGTAGGTC
Found at i:65030808 original size:225 final size:223
Alignment explanation
Indices: 65030365--65031096 Score: 793
Period size: 225 Copynumber: 3.2 Consensus size: 223
65030355 AAAATATCGA
* * * * * *
65030365 AGGTCACAATCTTAAATTGAGCAAACCTTAATAATATCAGTTGTGAACGTAGTAGGTCAACGAGC
1 AGGTCGCAATCTTAAA-TCAGCGAACCATAAAAATATCAGTTGTGAAC--A-TAGGTCAGCGAGC
* ** * **
65030430 TGTTAAAAAATTGAGGGTTGCAATCTTAAATTAGCAAACGGTAAAAATATCAAATGTGAACGTAG
62 TGTTAGAAAATTGAGGGTCACAATCTTAAATTAGCAGACCTTAAAAATATCAAATGTGAACGTAG
** * * * * * *
65030495 GTCAATGAGC-AGTTAGCAAATTGAGGGTCAGGATCTTAAATCAACAGATCGAAAAAGTTTTAGT
127 GTCAGCGAGCTA-TTAGAAAATTGAGGGTCACGATCTTAAATCAACAGA-CCAAAAAATATCAGT
* *
65030559 TGTGAACGTAGGTCAGTAAGCTGTTAGAAAATTG
190 TGTGAACGTAGGTCAGTGAGCTGTTAGAAAACTG
* * * * * *
65030593 AGAGTCGCAATCTGAAATTAGCGGACCGTAAAAATATTAGTTGTGAACGTAGGTCAGCGAGCTGT
1 AG-GTCGCAATCTTAAATCAGCGAACCATAAAAATATCAGTTGTGAACATAGGTCAGCGAGCTGT
* * * * * *
65030658 TAGAAAATCGAGGGTCACAATCTTAAATCAGCGGACCTTAAAAATGTCAACTGTGAATGTAGGTC
65 TAGAAAATTGAGGGTCACAATCTTAAATTAGCAGACCTTAAAAATATCAAATGTGAACGTAGGTC
* * *
65030723 AGCGAGCTATTAGAAAATCGAGGGTTACGATCTTAAATCAGCAGACCATAAAAATATCAGTTGTG
130 AGCGAGCTATTAGAAAATTGAGGGTCACGATCTTAAATCAACAGACCA-AAAAATATCAGTTGTG
* * * *
65030788 AACGTAGGTTAGCGAGCTGTTAGAAAGCCG
194 AACGTAGGTCAGTGAGCTGTTAGAAAACTG
* ** * *
65030818 AGGATTGCAATCTTAAATCAATGAACCATAAAAATATCAGTTGTGAACATAAGTCAGCGAGATGT
1 AGG-TCGCAATCTTAAATCAGCGAACCATAAAAATATCAGTTGTGAACATAGGTCAGCGAGCTGT
* * * *
65030883 TAGAAAATTGAGGGTCACGATCTTAAATTAGCAGA-TTGTAAAAATATCAATTGTGAACATAGGT
65 TAGAAAATTGAGGGTCACAATCTTAAATTAGCAGACCT-TAAAAATATCAAATGTGAACGTAGGT
* * * * * *
65030947 TAGCGAGCTGTTAGAAAATTGAGGGTCGCGATCTTAAATCAATAGACCGAAAAAATATCAGCTAT
129 CAGCGAGCTATTAGAAAATTGAGGGTCACGATCTTAAATCAACAGACC-AAAAAATATCAGTTGT
* * * *
65031012 GAATGTAGGTCAGTGAGATGATAGAAAACTA
193 GAACGTAGGTCAGTGAGCTGTTAGAAAACTG
*
65031043 AGGGTCGCGATCTTAAATCAGCGAACCATAAAAATATCAGTTGTGAACATAGGT
1 A-GGTCGCAATCTTAAATCAGCGAACCATAAAAATATCAGTTGTGAACATAGGT
65031097 TAGCAAATTG
Statistics
Matches: 416, Mismatches: 81, Indels: 17
0.81 0.16 0.03
Matches are distributed among these distances:
224 4 0.01
225 369 0.89
226 4 0.01
228 27 0.06
229 12 0.03
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.26
Consensus pattern (223 bp):
AGGTCGCAATCTTAAATCAGCGAACCATAAAAATATCAGTTGTGAACATAGGTCAGCGAGCTGTT
AGAAAATTGAGGGTCACAATCTTAAATTAGCAGACCTTAAAAATATCAAATGTGAACGTAGGTCA
GCGAGCTATTAGAAAATTGAGGGTCACGATCTTAAATCAACAGACCAAAAAATATCAGTTGTGAA
CGTAGGTCAGTGAGCTGTTAGAAAACTG
Found at i:65035079 original size:23 final size:22
Alignment explanation
Indices: 65035036--65035079 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
65035026 TTCTAAGTCG
65035036 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
65035059 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
65035080 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:65035278 original size:51 final size:50
Alignment explanation
Indices: 65035212--65035409 Score: 229
Period size: 51 Copynumber: 3.9 Consensus size: 50
65035202 ATCAATGATG
* * *
65035212 TTCGATTCACATAGTAGCCTGCACATAGTACTACACATGTGGCCATTATCA
1 TTCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCA
* * *
65035263 TTCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTA
1 TTCGATACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-A
* * * ** *
65035314 TCCGGTACGCATAGTAGCCTGCACATAGTACTACACGTGCGACC-TATCA
1 TTCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATATCA
*
65035363 TTTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 -TTCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
65035410 CACTTTCACT
Statistics
Matches: 122, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
49 1 0.01
50 44 0.36
51 75 0.61
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
TTCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATATCA
Found at i:65035397 original size:101 final size:101
Alignment explanation
Indices: 65035221--65035405 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 101
65035211 GTTCGATTCA
* * *
65035221 CATAGTAGCCTGCACATAGTACTACACATGTGGCCATTATCATTCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TATCATTCGATACACATAGTAGCCTGCA
65035286 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* *
65035323 CATAGTAGCCTGCACATAGTACTACACGTGCGACC-TATCATTTCGGTACACATAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATATCA-TTCGATACACATAGTAGCCTGCA
65035387 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
65035406 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 5 0.06
101 40 0.52
102 32 0.42
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATATCATTCGATACACATAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:65041338 original size:24 final size:25
Alignment explanation
Indices: 65041308--65041369 Score: 92
Period size: 24 Copynumber: 2.5 Consensus size: 25
65041298 GCTATCCGGT
65041308 GCTACCCGTTA-AGTGCTCTTTG-GA
1 GCTACCCGTTATAG-GCTCTTTGTGA
65041332 GCTACCCGTTATAGGCTCTTTGTGA
1 GCTACCCGTTATAGGCTCTTTGTGA
*
65041357 GCTTCCCGTTATA
1 GCTACCCGTTATA
65041370 TTTCCCGGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
24 19 0.54
25 16 0.46
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (25 bp):
GCTACCCGTTATAGGCTCTTTGTGA
Found at i:65045726 original size:5 final size:5
Alignment explanation
Indices: 65045716--65045742 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
65045706 GGTTAATATG
65045716 AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AA
65045743 ACTCGTATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:65045913 original size:50 final size:50
Alignment explanation
Indices: 65045857--65045982 Score: 150
Period size: 50 Copynumber: 2.5 Consensus size: 50
65045847 AAACTGAACC
*
65045857 CTAATCTTATGAAAAGCTTTGGTGG-AGTATTATTTGGAAAGCCTTTATGA
1 CTAATCTTATGAAAAGCTTTGGTGGCA-TATTATCTGGAAAGCCTTTATGA
* * * *
65045907 TTAATCTTATGAAAATCCTTT-GTGGCATATTATCTGGAAAGCCTTTGTGG
1 CTAATCTTATGAAAA-GCTTTGGTGGCATATTATCTGGAAAGCCTTTATGA
*
65045957 CTAATATTATGAAAAGCCTTT-GTGGC
1 CTAATCTTATGAAAAG-CTTTGGTGGC
65045983 TAATCTTATG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
50 60 0.92
51 5 0.08
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.38
Consensus pattern (50 bp):
CTAATCTTATGAAAAGCTTTGGTGGCATATTATCTGGAAAGCCTTTATGA
Found at i:65045951 original size:25 final size:24
Alignment explanation
Indices: 65045913--65045997 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 24
65045903 ATGATTAATC
*
65045913 TTATGAAAATCCTTTGTGGC-ATA
1 TTATGAAAAGCCTTTGTGGCAATA
*
65045936 TTATCTGGAAAGCCTTTGTGGCTAATA
1 TTA--TGAAAAGCCTTTGTGGC-AATA
*
65045963 TTATGAAAAGCCTTTGTGGCTAATC
1 TTATGAAAAGCCTTTGTGGC-AATA
65045988 TTATGAAAAG
1 TTATGAAAAG
65045998 TGTAACAACC
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
23 3 0.06
25 45 0.83
27 6 0.11
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (24 bp):
TTATGAAAAGCCTTTGTGGCAATA
Found at i:65047254 original size:27 final size:27
Alignment explanation
Indices: 65047209--65047283 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 27
65047199 ATAGGGGAAG
**
65047209 TATACTG-TATTGGTGGCTTTGCCACA
1 TATACTGTTATTGGCAGCTTTGCCACA
** *
65047235 TATACTGTTATTGGCAGCTTTGCTGCG
1 TATACTGTTATTGGCAGCTTTGCCACA
*
65047262 T-TACTGTTACTGGCAGCTTTGC
1 TATACTGTTATTGGCAGCTTTGC
65047284 TGCGATATTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 27 0.64
27 15 0.36
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.40
Consensus pattern (27 bp):
TATACTGTTATTGGCAGCTTTGCCACA
Found at i:65047266 original size:26 final size:26
Alignment explanation
Indices: 65047237--65047287 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
65047227 TTGCCACATA
*
65047237 TACTGTTATTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGCAGCTTTGCTGCGT
65047263 TACTGTTACTGGCAGCTTTGCTGCG
1 TACTGTTACTGGCAGCTTTGCTGCG
65047288 ATATTGGTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.22, G:0.27, T:0.39
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCGT
Found at i:65051858 original size:44 final size:43
Alignment explanation
Indices: 65051774--65051861 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
65051764 TACCTTCAGG
*
65051774 GTTGCTTCAACCGGTTAAAATTCCACTTTGGAAGTGGGAAAGA
1 GTTGCTTCAACCGGTTAAAATGCCACTTTGGAAGTGGGAAAGA
* *
65051817 GTTGCTTCAGCCGGTTAAGATGCCGACTTTGGAAGTGGGAAAGA
1 GTTGCTTCAACCGGTTAAAATGCC-ACTTTGGAAGTGGGAAAGA
65051861 G
1 G
65051862 AAACTATGGA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 21 0.51
44 20 0.49
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (43 bp):
GTTGCTTCAACCGGTTAAAATGCCACTTTGGAAGTGGGAAAGA
Found at i:65054382 original size:27 final size:27
Alignment explanation
Indices: 65054344--65054458 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 27
65054334 AATGGGCCAC
**
65054344 AAATGACCGAATTACCCTTAAAGGGTA
1 AAATGACCGAATTACCCCCAAAGGGTA
* * *
65054371 AAATGATCGAATTACCCTCAAAGGATA
1 AAATGACCGAATTACCCCCAAAGGGTA
65054398 AAATGACCGAATTACCCCCAAAGGGTA
1 AAATGACCGAATTACCCCCAAAGGGTA
* * * *
65054425 AAATGACCGAAATACCCCTATACGGTA
1 AAATGACCGAATTACCCCCAAAGGGTA
65054452 AAATGAC
1 AAATGAC
65054459 TGTTATAACC
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATGACCGAATTACCCCCAAAGGGTA
Found at i:65054707 original size:26 final size:26
Alignment explanation
Indices: 65054640--65054710 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
65054630 ACATATACCG
* *
65054640 TTACTGGCAGCTTTGCTGCATTACTG
1 TTACTGGCAGCTTTGTTGCATTACTA
** *
65054666 TTACTGGCAGCTTTGTTGTGTTATTA
1 TTACTGGCAGCTTTGTTGCATTACTA
65054692 TTACTGGCAGCTTTGTTGC
1 TTACTGGCAGCTTTGTTGC
65054711 GATATTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.14, C:0.18, G:0.24, T:0.44
Consensus pattern (26 bp):
TTACTGGCAGCTTTGTTGCATTACTA
Found at i:65057437 original size:20 final size:19
Alignment explanation
Indices: 65057414--65057455 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
65057404 TAAAGAAAGT
65057414 AAAT-AAAATGGAAAGTAATG
1 AAATGAAAAT-GAAAGTAA-G
*
65057434 AAATGCAAATGAAAGTAAG
1 AAATGAAAATGAAAGTAAG
65057453 AAA
1 AAA
65057456 ATTTGAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.62, C:0.02, G:0.19, T:0.17
Consensus pattern (19 bp):
AAATGAAAATGAAAGTAAG
Found at i:65057921 original size:15 final size:16
Alignment explanation
Indices: 65057903--65057932 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65057893 TGGTGTCTTA
65057903 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
65057918 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
65057933 AACATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:65059243 original size:19 final size:18
Alignment explanation
Indices: 65059197--65059245 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
65059187 GATAGAATTT
* *
65059197 TTGTCATAAAATATTTAAT
1 TTGT-ATAAAATAATTAAA
*
65059216 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
65059234 TTGTATTAAAAT
1 TTGTA-TAAAAT
65059246 TTTGAACATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:65059881 original size:14 final size:14
Alignment explanation
Indices: 65059858--65059887 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
65059848 CATCCCTCAT
*
65059858 TCACATCTCTTCTC
1 TCACAACTCTTCTC
65059872 TCACAACTCTTCTC
1 TCACAACTCTTCTC
65059886 TC
1 TC
65059888 CTCTCTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (14 bp):
TCACAACTCTTCTC
Found at i:65064834 original size:17 final size:18
Alignment explanation
Indices: 65064800--65064835 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
65064790 CCATTCTCCT
65064800 TAGGCTTTGCCTTAGCCC
1 TAGGCTTTGCCTTAGCCC
*
65064818 TAGGCTTT-CCTTTGCCC
1 TAGGCTTTGCCTTAGCCC
65064835 T
1 T
65064836 TGTCCTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.08, C:0.33, G:0.19, T:0.39
Consensus pattern (18 bp):
TAGGCTTTGCCTTAGCCC
Found at i:65074122 original size:11 final size:11
Alignment explanation
Indices: 65074108--65074169 Score: 72
Period size: 11 Copynumber: 5.6 Consensus size: 11
65074098 GTGGTGCAAG
65074108 GGTGGTGATAT
1 GGTGGTGATAT
*
65074119 GGTGGTGGTAT
1 GGTGGTGATAT
* * *
65074130 GGTAGTGGTGT
1 GGTGGTGATAT
65074141 GGTGGTGATAT
1 GGTGGTGATAT
65074152 GGTGGTTG-TAT
1 GGTGG-TGATAT
65074163 GGTGGTG
1 GGTGGTG
65074170 TTTCAAATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
10 2 0.05
11 40 0.91
12 2 0.05
ACGTcount: A:0.11, C:0.00, G:0.52, T:0.37
Consensus pattern (11 bp):
GGTGGTGATAT
Found at i:65075371 original size:21 final size:21
Alignment explanation
Indices: 65075336--65075398 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
65075326 AACACATGTG
**
65075336 AAAACAAAATGAAACATAAAA
1 AAAACAAAAAAAAACATAAAA
65075357 ACAAA-AAAAAAAAAC-TGAAAA
1 A-AAACAAAAAAAAACAT-AAAA
* *
65075378 AAAACTAAGAAAAACATAAAA
1 AAAACAAAAAAAAACATAAAA
65075399 GTTTGAAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.12
21 26 0.76
22 4 0.12
ACGTcount: A:0.78, C:0.10, G:0.05, T:0.08
Consensus pattern (21 bp):
AAAACAAAAAAAAACATAAAA
Found at i:65080321 original size:9 final size:9
Alignment explanation
Indices: 65080286--65080332 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
65080276 AAGAAGAAGT
65080286 TAAAATAAA
1 TAAAATAAA
65080295 TTAAAA-ATAA
1 -TAAAATA-AA
*
65080305 TATGAATAAA
1 TA-AAATAAA
65080315 TAAAATAAA
1 TAAAATAAA
65080324 TAAAATAAA
1 TAAAATAAA
65080333 AAATTTGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
9 18 0.56
10 13 0.41
11 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (9 bp):
TAAAATAAA
Found at i:65081151 original size:4 final size:4
Alignment explanation
Indices: 65081144--65081177 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
65081134 TATATGTGAT
65081144 AATA AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
65081178 GCTATTATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:65082076 original size:42 final size:42
Alignment explanation
Indices: 65082014--65082110 Score: 158
Period size: 42 Copynumber: 2.3 Consensus size: 42
65082004 TATGAATGGT
*
65082014 ACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAATGGGC
1 ACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACGGGC
* * *
65082056 ACTAAGTGTGTGAAATTAAAATGATGATGTTGAATAACGGGC
1 ACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACGGGC
65082098 ACTAAGTGTGCGA
1 ACTAAGTGTGCGA
65082111 TACCGAGAGC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.26
Consensus pattern (42 bp):
ACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACGGGC
Found at i:65084716 original size:43 final size:42
Alignment explanation
Indices: 65084655--65084740 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 42
65084645 AGGAAATTTT
*
65084655 ACTGAATTAGTGACTAATTAAGGTACAAGGACTAAATCGTAAC
1 ACTGAATTAGTGACTAATTAAGGTACAAGCAC-AAATCGTAAC
65084698 ACTGAATTAGTGACTAATTAAGGTACAAGCACAAATCGTAAC
1 ACTGAATTAGTGACTAATTAAGGTACAAGCACAAATCGTAAC
65084740 A
1 A
65084741 ATCATAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 11 0.26
43 31 0.74
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.24
Consensus pattern (42 bp):
ACTGAATTAGTGACTAATTAAGGTACAAGCACAAATCGTAAC
Found at i:65115170 original size:25 final size:25
Alignment explanation
Indices: 65115086--65115170 Score: 77
Period size: 25 Copynumber: 3.4 Consensus size: 25
65115076 GTACATGTAT
*
65115086 GCTCATACGAGCTG--TAATCGATAA
1 GCTCATACGAGCTGAATAA-CGGTAA
*
65115110 GTTCATACGAGCT-AAGTAACGGTAA
1 GCTCATACGAGCTGAA-TAACGGTAA
* ** *
65115135 ACTGGTGCGAGCTGAATAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
65115160 GCTCATACGAG
1 GCTCATACGAG
65115171 TTGAGAATTG
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
24 12 0.26
25 29 0.63
26 5 0.11
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:65117635 original size:27 final size:27
Alignment explanation
Indices: 65117595--65117802 Score: 240
Period size: 27 Copynumber: 7.7 Consensus size: 27
65117585 AACACATTAA
* *
65117595 GAAAGAAAAACCTTTGTGGCAAAATAT
1 GAAAGGAAAGCCTTTGTGGCAAAATAT
65117622 GAAAGGAAAGCCTTTGTGGCAAAATAT
1 GAAAGGAAAGCCTTTGTGGCAAAATAT
* *
65117649 GAAAGGAAAGCCTTTGTGGCGAATTAT
1 GAAAGGAAAGCCTTTGTGGCAAAATAT
* * **
65117676 GAAAGGAAATCCTTTTTGAAAAAATAT
1 GAAAGGAAAGCCTTTGTGGCAAAATAT
* * **
65117703 GAAAGGAAATCCTTTATGGTGAAATAT
1 GAAAGGAAAGCCTTTGTGGCAAAATAT
* *
65117730 GAAAGGAAAGCCTTTATGG-AGAATCAT
1 GAAAGGAAAGCCTTTGTGGCAAAAT-AT
*
65117757 GAAAAGAAAGCCTTTGTGG-AAAATTAT
1 GAAAGGAAAGCCTTTGTGGCAAAA-TAT
*
65117784 GAAAGGAAGGCCTTTGTGG
1 GAAAGGAAAGCCTTTGTGG
65117803 TGAACCCTGC
Statistics
Matches: 157, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 3 0.02
27 153 0.97
28 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.25, T:0.25
Consensus pattern (27 bp):
GAAAGGAAAGCCTTTGTGGCAAAATAT
Found at i:65117824 original size:81 final size:80
Alignment explanation
Indices: 65117596--65117806 Score: 269
Period size: 81 Copynumber: 2.6 Consensus size: 80
65117586 ACACATTAAG
**
65117596 AAAGAAAAACCTTTGTGGCAAAATATGAAAGGAAAGCCTTTGTGGCAAAATATGAAAGGAAAGCC
1 AAAG-AAAACCTTTGTGG-AAAATATGAAAGGAAAGCCTTTGTGGTGAAATATGAAAGGAAAGCC
* * *
65117661 TTTGTGGCGAATTATGA
64 TTTATGGAGAATCATGA
* * * * * *
65117678 AAGGAAATCCTTTTTGAAAAAATATGAAAGGAAATCCTTTATGGTGAAATATGAAAGGAAAGCCT
1 AAAGAAAACCTTTGTG-GAAAATATGAAAGGAAAGCCTTTGTGGTGAAATATGAAAGGAAAGCCT
65117743 TTATGGAGAATCATGA
65 TTATGGAGAATCATGA
* *
65117759 AAAGAAAGCCTTTGTGGAAAATTATGAAAGGAAGGCCTTTGTGGTGAA
1 AAAGAAAACCTTTGTGGAAAA-TATGAAAGGAAAGCCTTTGTGGTGAA
65117807 CCCTGCAATG
Statistics
Matches: 109, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
80 4 0.04
81 102 0.94
82 3 0.03
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.25
Consensus pattern (80 bp):
AAAGAAAACCTTTGTGGAAAATATGAAAGGAAAGCCTTTGTGGTGAAATATGAAAGGAAAGCCTT
TATGGAGAATCATGA
Done.